Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 148 of 208
Found at i:45280953 original size:10 final size:10
Alignment explanation
Indices: 45280913--45280966 Score: 58
Period size: 10 Copynumber: 5.3 Consensus size: 10
45280903 ATAAGTCACA
45280913 AAAAATAAAT
1 AAAAATAAAT
45280923 AATAAAT-AAT
1 AA-AAATAAAT
*
45280933 ATAAGATAAAT
1 A-AAAATAAAT
45280944 AAATAA-AAAT
1 AAA-AATAAAT
45280954 AAAAATAAAT
1 AAAAATAAAT
45280964 AAA
1 AAA
45280967 CCAAATTGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 2 0.05
10 25 0.68
11 10 0.27
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:45280961 original size:25 final size:24
Alignment explanation
Indices: 45280915--45280966 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
45280905 AAGTCACAAA
*
45280915 AAATAAATAATAAATAATATAAGAT
1 AAATAAATAATAAATAAAATAA-AT
45280940 AAATAAATAA-AAATAAAAATAAAT
1 AAATAAATAATAAAT-AAAATAAAT
45280964 AAA
1 AAA
45280967 CCAAATTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (24 bp):
AAATAAATAATAAATAAAATAAAT
Found at i:45283539 original size:243 final size:243
Alignment explanation
Indices: 45283105--45283592 Score: 940
Period size: 243 Copynumber: 2.0 Consensus size: 243
45283095 CATATAACAA
*
45283105 CAGTACAATCACTCAAATCCTTCATTCAACCCTAGTCCAATGTTTAATCTATCATTCATGACAAA
1 CAGTAAAATCACTCAAATCCTTCATTCAACCCTAGTCCAATGTTTAATCTATCATTCATGACAAA
45283170 ACAACAATCTATTCACTTTATCAACTAAGGCCACAACACATTTAATTCTACCATCAAGCATAATC
66 ACAACAATCTATTCACTTTATCAACTAAGGCCACAACACATTTAATTCTACCATCAAGCATAATC
45283235 ACCTCAATTTTAAGCATGTATATTCAAATTGCCATGCCAATTATACTTAAATACCTAAGTGCATA
131 ACCTCAATTTTAAGCATGTATATTCAAATTGCCATGCCAATTATACTTAAATACCTAAGTGCATA
*
45283300 TCAAACCAGTTATGAAATCCATATATATACTCATATATACTTTGAATT
196 TCAAACCAGTTATGAAATCCATATAAATACTCATATATACTTTGAATT
*
45283348 CAGTAAAATCACTCAAATCCTTCATTCAACCCTAGTCCAATGTTTAATCTATCATTCATGACACA
1 CAGTAAAATCACTCAAATCCTTCATTCAACCCTAGTCCAATGTTTAATCTATCATTCATGACAAA
45283413 ACAACAATCTATTCACTTTATCAACTAAGGCCACAACACATTTAATTCTACCATCAAGCATAATC
66 ACAACAATCTATTCACTTTATCAACTAAGGCCACAACACATTTAATTCTACCATCAAGCATAATC
45283478 ACCTCAATTTTAAGCATGTATATTCAAATTGCCATGCCAATTATACTTAAATACCTAAGTGCATA
131 ACCTCAATTTTAAGCATGTATATTCAAATTGCCATGCCAATTATACTTAAATACCTAAGTGCATA
*
45283543 TCAAACCAGTTATGAAATCGATATAAATACTCATATATACTTTGAATT
196 TCAAACCAGTTATGAAATCCATATAAATACTCATATATACTTTGAATT
45283591 CA
1 CA
45283593 AAGGATAATT
Statistics
Matches: 241, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
243 241 1.00
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (243 bp):
CAGTAAAATCACTCAAATCCTTCATTCAACCCTAGTCCAATGTTTAATCTATCATTCATGACAAA
ACAACAATCTATTCACTTTATCAACTAAGGCCACAACACATTTAATTCTACCATCAAGCATAATC
ACCTCAATTTTAAGCATGTATATTCAAATTGCCATGCCAATTATACTTAAATACCTAAGTGCATA
TCAAACCAGTTATGAAATCCATATAAATACTCATATATACTTTGAATT
Found at i:45284046 original size:18 final size:18
Alignment explanation
Indices: 45284023--45284058 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45284013 AGACTCGTAA
45284023 GTCCAATTTGCATAATCT
1 GTCCAATTTGCATAATCT
45284041 GTCCAATTTGCATAATCT
1 GTCCAATTTGCATAATCT
45284059 TTCACAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (18 bp):
GTCCAATTTGCATAATCT
Found at i:45286882 original size:18 final size:18
Alignment explanation
Indices: 45286852--45286886 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45286842 ACAGGGTCAA
45286852 TACATACATATTCATACT
1 TACATACATATTCATACT
45286870 TACATCACA-ATTCATAC
1 TACAT-ACATATTCATAC
45286887 GATCATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.34
Consensus pattern (18 bp):
TACATACATATTCATACT
Found at i:45293729 original size:50 final size:49
Alignment explanation
Indices: 45293661--45293810 Score: 173
Period size: 50 Copynumber: 3.0 Consensus size: 49
45293651 AAAAAAATTC
*
45293661 TTTGGGTGCTGGCCTGTCAATGGTCGGCACCAGTATACGAAAATTTTTTT
1 TTTGAGTGCTGGCCTGTCAATGGT-GGCACCAGTATACGAAAATTTTTTT
* * *
45293711 TTTGAGTGCT-GCCTTGTCAATGGATGCCACCAATATATGAAAA--TTTTT
1 TTTGAGTGCTGGCC-TGTCAATGG-TGGCACCAGTATACGAAAATTTTTTT
* *
45293759 TTTGTGTGCTGGCCTGTCAATGGTTGGCACCAGCAGTAC-AAAATTTTTTT
1 TTTGAGTGCTGGCCTGTCAATGG-TGGCACCAGTA-TACGAAAATTTTTTT
45293809 TT
1 TT
45293811 GTGCTGGCTT
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
48 35 0.42
49 8 0.10
50 40 0.48
51 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (49 bp):
TTTGAGTGCTGGCCTGTCAATGGTGGCACCAGTATACGAAAATTTTTTT
Found at i:45293777 original size:48 final size:46
Alignment explanation
Indices: 45293661--45293818 Score: 167
Period size: 48 Copynumber: 3.3 Consensus size: 46
45293651 AAAAAAATTC
*
45293661 TTTGGGTGCTGGCCTGTCAATGGTCGGCACCAGTATACGAAAATTTTTTT
1 TTTGTGTGCTGGCCTGTCAATGGT-GGCACCAGTATA-GAAAA--TTTTT
* * *
45293711 TTTGAGTGCT-GCCTTGTCAATGGATGCCACCAATATATGAAAATTTTT
1 TTTGTGTGCTGGCC-TGTCAATGG-TGGCACCAGTATA-GAAAATTTTT
* *
45293759 TTTGTGTGCTGGCCTGTCAATGGTTGGCACCAGCAGTACAAAATTTTT
1 TTTGTGTGCTGGCCTGTCAATGG-TGGCACCAGTA-TAGAAAATTTTT
45293807 TTT-TGTGCTGGC
1 TTTGTGTGCTGGC
45293819 TTCTCAAAGG
Statistics
Matches: 94, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
47 9 0.10
48 43 0.46
49 8 0.09
50 33 0.35
51 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (46 bp):
TTTGTGTGCTGGCCTGTCAATGGTGGCACCAGTATAGAAAATTTTT
Found at i:45293836 original size:47 final size:48
Alignment explanation
Indices: 45293750--45293848 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 48
45293740 CCAATATATG
* * * * *
45293750 AAAATTTTTTTTGTGTGCTGGCCTGTCAATGGTTGGCACCAGCAGTAC
1 AAAATTTTTTTTGTGTGCTGGCCTCTCAAAGGCTAGCACCACCAGTAC
* *
45293798 AAAATTTTTTTT-TGTGCTGGCTTCTCAAAGGCTAGCACCACCAGTAT
1 AAAATTTTTTTTGTGTGCTGGCCTCTCAAAGGCTAGCACCACCAGTAC
45293845 AAAA
1 AAAA
45293849 AAATTTTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 32 0.73
48 12 0.27
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (48 bp):
AAAATTTTTTTTGTGTGCTGGCCTCTCAAAGGCTAGCACCACCAGTAC
Found at i:45293839 original size:98 final size:97
Alignment explanation
Indices: 45293661--45293865 Score: 247
Period size: 98 Copynumber: 2.1 Consensus size: 97
45293651 AAAAAAATTC
*
45293661 TTTGGGTGCTGGCCTGTCAATGGTCGGCACCAGTATACGAAAATTTTTTTTTTGAGTGCTGCCTT
1 TTTGGGTGCTGGCCTGTCAATGGTCGGCACCAGCATACGAAAATTTTTTTTTT-AGTGCTGCCTT
* * **
45293726 GTCAATGGATGCCACCAATATATGAAAATTTTT
65 CTCAAAGGATGCCACCAATATAAAAAAATTTTT
* * *
45293759 TTTGTGTGCTGGCCTGTCAATGGTTGGCACCAGCAGTAC-AAAA-TTTTTTTTT-GTGCTGGCTT
1 TTTGGGTGCTGGCCTGTCAATGGTCGGCACCAGCA-TACGAAAATTTTTTTTTTAGTGCTGCCTT
* *
45293821 CTCAAAGGCTAGCACCACCAGTATAAAAAAA-TTTT
65 CTCAAAGGAT-G--CCACCAATATAAAAAAATTTTT
45293856 TTTGGGTGCT
1 TTTGGGTGCT
45293866 AGCAGTCCAA
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
95 16 0.17
96 1 0.01
97 22 0.24
98 50 0.54
99 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.36
Consensus pattern (97 bp):
TTTGGGTGCTGGCCTGTCAATGGTCGGCACCAGCATACGAAAATTTTTTTTTTAGTGCTGCCTTC
TCAAAGGATGCCACCAATATAAAAAAATTTTT
Found at i:45296872 original size:21 final size:23
Alignment explanation
Indices: 45296851--45296894 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
45296841 GTAAATTAAA
45296851 TTTAAATGAAATGAGG-GAAAAT
1 TTTAAATGAAATGAGGAGAAAAT
* *
45296873 TTTAATTTAAATGAGGAGAAAA
1 TTTAAATGAAATGAGGAGAAAA
45296895 AAATTTGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (23 bp):
TTTAAATGAAATGAGGAGAAAAT
Found at i:45296987 original size:19 final size:21
Alignment explanation
Indices: 45296963--45297005 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
45296953 AAAACATAAT
*
45296963 ATAAA-TG-AATTGAGAAAAA
1 ATAAATTGAAATTGAAAAAAA
45296982 ATAAATTGAAATTGAAAAAAA
1 ATAAATTGAAATTGAAAAAAA
45297003 ATA
1 ATA
45297006 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 2 0.10
21 14 0.67
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (21 bp):
ATAAATTGAAATTGAAAAAAA
Found at i:45297022 original size:5 final size:5
Alignment explanation
Indices: 45297012--45297082 Score: 52
Period size: 5 Copynumber: 13.2 Consensus size: 5
45297002 AATATTTTTT
* * *
45297012 AAATG AAATG AAAGGG AAATGG TAATGG AAATG AAATT AGAATG AAATG
1 AAATG AAATG AAA-TG AAAT-G AAAT-G AAATG AAATG A-AATG AAATG
* *
45297061 AAATAA AAATA AAATG AAATG A
1 AAAT-G AAATG AAATG AAATG A
45297083 CCTGAAAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
5 33 0.61
6 21 0.39
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.20
Consensus pattern (5 bp):
AAATG
Found at i:45297060 original size:16 final size:16
Alignment explanation
Indices: 45297039--45297080 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
45297029 AATGGTAATG
* *
45297039 GAAATGAAATTAGAAT
1 GAAATGAAATAAAAAT
45297055 GAAATGAAATAAAAAT
1 GAAATGAAATAAAAAT
*
45297071 AAAATGAAAT
1 GAAATGAAAT
45297081 GACCTGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (16 bp):
GAAATGAAATAAAAAT
Found at i:45297090 original size:21 final size:21
Alignment explanation
Indices: 45297012--45297082 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
45297002 AATATTTTTT
***
45297012 AAATGAAATGAAAGGGAAATGG
1 AAATGAAATGAAAATAAAAT-G
* * *
45297034 TAATGGAAATGAAATTAGAATG
1 AAAT-GAAATGAAAATAAAATG
*
45297056 AAATGAAATAAAAATAAAATG
1 AAATGAAATGAAAATAAAATG
45297077 AAATGA
1 AAATGA
45297083 CCTGAAAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
21 20 0.51
22 7 0.18
23 12 0.31
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.20
Consensus pattern (21 bp):
AAATGAAATGAAAATAAAATG
Found at i:45297521 original size:36 final size:37
Alignment explanation
Indices: 45297457--45297527 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
45297447 CTTTTTTTCA
** *
45297457 AAAAAAATTTAAATTTAAATTGACAAAAATAAAATAT
1 AAAAAAATTTAAAAATAAATTGAAAAAAATAAAATAT
* *
45297494 AAAAAAATTTAAAAATAGA-TGAAAAAAATTAAAT
1 AAAAAAATTTAAAAATAAATTGAAAAAAATAAAAT
45297528 TACGTTGATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 13 0.45
37 16 0.55
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (37 bp):
AAAAAAATTTAAAAATAAATTGAAAAAAATAAAATAT
Found at i:45300929 original size:48 final size:48
Alignment explanation
Indices: 45300858--45301184 Score: 319
Period size: 48 Copynumber: 6.8 Consensus size: 48
45300848 TAAAGTTTGA
* * *
45300858 TGCCGGCCATTAGA-AGGCTAGCACCTAAAATTCTTTTTCGTA-TACTGG
1 TGCCGGCCATT-GACAGGCCAGCACC-AAAATTTTTTTTCGTACTGCTGG
*
45300906 TGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTGTCGTACTGTTGG
1 TGCCGGCCATTGACAGGCCAGCA-CC-AAAA-TTTTTTT-TCGTACTGCTGG
* * * *
45300958 TGCCGGCCATTGACAGACCAGCA-CACAATTTTTTTTTCGTATTGCTAG
1 TGCCGGCCATTGACAGGCCAGCACCA-AAATTTTTTTTCGTACTGCTGG
* * *
45301006 TGCCGGCCATTGACAGGCCAGTACCCAAA-TTTTTTT-GTACTGGTGG
1 TGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTCGTACTGCTGG
* * *
45301052 TGCCGGCCATTGATAGGCCAGCACCCAAATTTTTTTTCGTA-TACTGG
1 TGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTCGTACTGCTGG
* * * * *
45301099 TGCCAGCCATTGACAAGG-CAACACCCAAATTTTTTTTTCGTA-TTCTGA
1 TGCCGGCCATTGAC-AGGCCAGCA-CCAAAATTTTTTTTCGTACTGCTGG
* *
45301147 TGTCGGCCATTGACAGGGCAGCACCTAAAATTTTTTTT
1 TGCCGGCCATTGACAGGCCAGCACC-AAAATTTTTTTT
45301185 TGTTTTTTTT
Statistics
Matches: 234, Mismatches: 32, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
46 34 0.15
47 41 0.18
48 104 0.44
49 15 0.06
50 9 0.04
51 5 0.02
52 26 0.11
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (48 bp):
TGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTCGTACTGCTGG
Found at i:45300981 original size:100 final size:96
Alignment explanation
Indices: 45300858--45301184 Score: 373
Period size: 94 Copynumber: 3.4 Consensus size: 96
45300848 TAAAGTTTGA
* *
45300858 TGCCGGCCATTAGA-AGGCTAGCACCTAAAATTCTTTTTCGTATACTGGTGCCGGCCATTGACAG
1 TGCCGGCCATT-GACAGGCCAGCACC-AAAATTTTTTTTCGTATACTGGTGCCGGCCATTGACAG
45300922 GCCAGCACCCAAAAATTTTTTTTGTCGTACTGTTGG
64 GCCAGCACCC--AAATTTTTTTT-TCGTACTGTTGG
* * * *
45300958 TGCCGGCCATTGACAGACCAGCA-CACAATTTTTTTTTCGTATTGCTAGTGCCGGCCATTGACAG
1 TGCCGGCCATTGACAGGCCAGCACCA-AAATTTTTTTTCGTA-TACTGGTGCCGGCCATTGACAG
* *
45301022 GCCAGTACCCAAA--TTTTTTT-GTACTGGTGG
64 GCCAGCACCCAAATTTTTTTTTCGTACTGTTGG
* * *
45301052 TGCCGGCCATTGATAGGCCAGCACCCAAATTTTTTTTCGTATACTGGTGCCAGCCATTGACAAGG
1 TGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTCGTATACTGGTGCCGGCCATTGAC-AGG
* *
45301117 -CAACACCCAAATTTTTTTTTCGTA-T-TCTGA
65 CCAGCACCCAAATTTTTTTTTCGTACTGT-TGG
* *
45301147 TGTCGGCCATTGACAGGGCAGCACCTAAAATTTTTTTT
1 TGCCGGCCATTGACAGGCCAGCACC-AAAATTTTTTTT
45301185 TGTTTTTTTT
Statistics
Matches: 194, Mismatches: 23, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
93 26 0.13
94 47 0.24
95 34 0.18
96 20 0.10
98 4 0.02
99 16 0.08
100 47 0.24
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (96 bp):
TGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTCGTATACTGGTGCCGGCCATTGACAGGC
CAGCACCCAAATTTTTTTTTCGTACTGTTGG
Found at i:45304125 original size:25 final size:25
Alignment explanation
Indices: 45304090--45304171 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
45304080 GTACATGTAT
45304090 GCTCATACGAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* * * *
45304115 GCTCCTTCGAGTTGTATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
45304140 GCTCATACGAGCT-AAGTATCGGTAA
1 GCTCATACGAGCTGAA-TAACGGTAA
*
45304165 TCTCATA
1 GCTCATA
45304172 AAAGTTGAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
24 1 0.02
25 45 0.98
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:45308222 original size:16 final size:16
Alignment explanation
Indices: 45308201--45308231 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45308191 CCTGACAACC
45308201 GTGGGAAGTAACCAAG
1 GTGGGAAGTAACCAAG
*
45308217 GTGGGAATTAACCAA
1 GTGGGAAGTAACCAA
45308232 AAATTGGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.13, G:0.32, T:0.16
Consensus pattern (16 bp):
GTGGGAAGTAACCAAG
Found at i:45308999 original size:4 final size:4
Alignment explanation
Indices: 45308987--45309021 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
45308977 TAAAATTAGT
45308987 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
45309022 AAGGATAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:45309417 original size:31 final size:31
Alignment explanation
Indices: 45309324--45309419 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
45309314 AGGCAATTAC
*
45309324 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
45309355 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
45309387 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
45309418 AA
1 AA
45309420 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:45326260 original size:20 final size:20
Alignment explanation
Indices: 45326232--45326336 Score: 77
Period size: 20 Copynumber: 5.2 Consensus size: 20
45326222 TGATGCATAA
45326232 CAGGGGCACCAAAGTGCAAT
1 CAGGGGCACCAAAGTGCAAT
* * * **
45326252 CAGGAGCACGAATGTGTGAT
1 CAGGGGCACCAAAGTGCAAT
* * *
45326272 CAAGGGTATCAAAGTGCAAT
1 CAGGGGCACCAAAGTGCAAT
* * *
45326292 TAGGGGGACCGAAGTGCAAT
1 CAGGGGCACCAAAGTGCAAT
* *
45326312 CAGGGG-AACAAATGTGCATT
1 CAGGGGCACCAAA-GTGCAAT
45326332 CAGGG
1 CAGGG
45326337 ACACTGTAGT
Statistics
Matches: 62, Mismatches: 22, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
19 4 0.06
20 58 0.94
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.16
Consensus pattern (20 bp):
CAGGGGCACCAAAGTGCAAT
Found at i:45326440 original size:40 final size:40
Alignment explanation
Indices: 45326281--45326440 Score: 162
Period size: 40 Copynumber: 4.0 Consensus size: 40
45326271 TCAAGGGTAT
* * * * *
45326281 CAAA-GTGCAATT-AGGGGGACCGAAGTGCAATCAGGGGAA
1 CAAATGTGC-ATTCAGGGGTACTGAAGTACAAACAGGGGCA
** * * * *
45326320 CAAATGTGCATTCAGGGACACTGTAGTGCAAATAGGGACA
1 CAAATGTGCATTCAGGGGTACTGAAGTACAAACAGGGGCA
* *
45326360 CAAATGTGCATTCAAGGGTACTGAAGTACAAACAGCGGCA
1 CAAATGTGCATTCAGGGGTACTGAAGTACAAACAGGGGCA
* *
45326400 CAGATGTGCATTCAGGGGTATTGAAGTACAAACAGGGGCA
1 CAAATGTGCATTCAGGGGTACTGAAGTACAAACAGGGGCA
45326440 C
1 C
45326441 TTCTTCATCT
Statistics
Matches: 99, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 7 0.07
40 92 0.93
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (40 bp):
CAAATGTGCATTCAGGGGTACTGAAGTACAAACAGGGGCA
Found at i:45332088 original size:20 final size:19
Alignment explanation
Indices: 45332065--45332277 Score: 79
Period size: 20 Copynumber: 10.7 Consensus size: 19
45332055 CACTTACGTG
45332065 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTC-GTA
* * * *
45332085 CCCCTGCTTGCACTGACGTG
1 CCCCTGTTTGTACT-TCGTA
* *
45332105 CCCATATTTGTACTTCTGTA
1 CCCCTGTTTGTACTTC-GTA
* * *
45332125 -CCCTGATTGCAC-TCTTA
1 CCCCTGTTTGTACTTCGTA
* *
45332142 TGCCTCTATTTGTACTTCGGTA
1 --CCCCTGTTTGTACTTC-GTA
* * *
45332164 CCCCTGATTGCACTCTCGTG
1 CCCCTGTTTGTACT-TCGTA
45332184 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTC-GTA
* *** *
45332204 CCCCTGATCACACTCTCGTG
1 CCCCTGTTTGTACT-TCGTA
**
45332224 CCCCTGTCCGTACTTCGGTA
1 CCCCTGTTTGTACTTC-GTA
* * * * *
45332244 TCCCTGATTGCACTCTCATG
1 CCCCTGTTTGTACT-TCGTA
45332264 CCCCTGTTTGTACT
1 CCCCTGTTTGTACT
45332278 CCAGTAAACC
Statistics
Matches: 133, Mismatches: 48, Indels: 24
0.65 0.23 0.12
Matches are distributed among these distances:
17 2 0.02
18 2 0.02
19 13 0.10
20 105 0.79
21 9 0.07
22 2 0.02
ACGTcount: A:0.13, C:0.34, G:0.17, T:0.36
Consensus pattern (19 bp):
CCCCTGTTTGTACTTCGTA
Found at i:45332096 original size:40 final size:40
Alignment explanation
Indices: 45332049--45332277 Score: 291
Period size: 40 Copynumber: 5.8 Consensus size: 40
45332039 AATTATTGAA
45332049 TGATTGCACT-TACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACTCT-CGTGCCCCTGTTTGTACTTCGGTACCCC
* ** * * *
45332089 TGCTTGCACTGACGTGCCCATATTTGTACTTCTGTA-CCC
1 TGATTGCACTCTCGTGCCCCTGTTTGTACTTCGGTACCCC
** * *
45332128 TGATTGCACTCTTATGCCTCTATTTGTACTTCGGTACCCC
1 TGATTGCACTCTCGTGCCCCTGTTTGTACTTCGGTACCCC
45332168 TGATTGCACTCTCGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACTCTCGTGCCCCTGTTTGTACTTCGGTACCCC
** ** *
45332208 TGATCACACTCTCGTGCCCCTGTCCGTACTTCGGTATCCC
1 TGATTGCACTCTCGTGCCCCTGTTTGTACTTCGGTACCCC
*
45332248 TGATTGCACTCTCATGCCCCTGTTTGTACT
1 TGATTGCACTCTCGTGCCCCTGTTTGTACT
45332278 CCAGTAAACC
Statistics
Matches: 160, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 31 0.19
40 129 0.81
ACGTcount: A:0.13, C:0.33, G:0.18, T:0.36
Consensus pattern (40 bp):
TGATTGCACTCTCGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:45348545 original size:129 final size:129
Alignment explanation
Indices: 45348315--45348576 Score: 418
Period size: 129 Copynumber: 2.0 Consensus size: 129
45348305 ATAGAGTGAT
* * * *
45348315 ATAGCTCCGAAAAGTTTCCAACCTGAACGAGCTTCCGATTCACTATAAAACACGAAAATAACATG
1 ATAGCTCCGAAAAGCTTCCAACCCGAACAAGCTTCCGATTCACTATAAAACACGAAAATAACAAG
*
45348380 GAGTAAGCATTTAAGCTTAGTAAGTTCGTATAACTTAGAATTTAACTTACCATTTAATCAAGTA
66 AAGTAAGCATTTAAGCTTAGTAAGTTCGTATAACTTAGAATTTAACTTACCATTTAATCAAGTA
* * ** *
45348444 ATAGCTCCGACAAGCTTCCAACCCGGACAAGCTTTTGGTTCACTATAAAACACGAAAATAACACA
1 ATAGCTCCGAAAAGCTTCCAACCCGAACAAGCTTCCGATTCACTATAAAACACGAAAATAACA-A
45348509 GAAG-AAGCATTTAAGCTTAGTAAGTTCGTATAACTTAGAATTTAACTTACCATTTAATCAAGTA
65 GAAGTAAGCATTTAAGCTTAGTAAGTTCGTATAACTTAGAATTTAACTTACCATTTAATCAAGTA
45348573 ATAG
1 ATAG
45348577 GTAAGTATAA
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
129 119 0.98
130 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (129 bp):
ATAGCTCCGAAAAGCTTCCAACCCGAACAAGCTTCCGATTCACTATAAAACACGAAAATAACAAG
AAGTAAGCATTTAAGCTTAGTAAGTTCGTATAACTTAGAATTTAACTTACCATTTAATCAAGTA
Found at i:45348996 original size:25 final size:25
Alignment explanation
Indices: 45348917--45349060 Score: 137
Period size: 25 Copynumber: 5.8 Consensus size: 25
45348907 TCATGTACGT
* * * *
45348917 GTATGCTCATATGAGCTATGAATCA
1 GTATGCTCTTACGAGCTATAAATCG
* * * *
45348942 GCATGCTCATT-TGAGCTATAGATCA
1 GTATGCTC-TTACGAGCTATAAATCG
*
45348967 ATATGCTCTTACGAGCTATAAATCG
1 GTATGCTCTTACGAGCTATAAATCG
* * * *
45348992 GTATGCTTTTAAGAGTTATAAATTG
1 GTATGCTCTTACGAGCTATAAATCG
* *
45349017 GTATGCTCTTACAAACTATAAATCG
1 GTATGCTCTTACGAGCTATAAATCG
45349042 GTATGCTCTTACGAGCTAT
1 GTATGCTCTTACGAGCTAT
45349061 GGAGTATCTG
Statistics
Matches: 95, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
24 2 0.02
25 92 0.97
26 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (25 bp):
GTATGCTCTTACGAGCTATAAATCG
Found at i:45353792 original size:163 final size:163
Alignment explanation
Indices: 45353522--45354011 Score: 777
Period size: 163 Copynumber: 3.0 Consensus size: 163
45353512 ACTCAATAGG
* * *
45353522 TAAATTCTTAATAGACATTAAATTCGTGCACACATATGAATGAGTGGATCCTGGATCAATCAAAG
1 TAAATTCTTACTAGACACTAAATTCGTGCACACATATGAATGAGTGGATCCCGGATCAATCAAAG
*
45353587 CAGTAATATCAGTATAAAAAATAGAAAAAGTACCAGTAATAACATCTGGCACAGAGGCATCCTCT
66 CAGTAATATCAGTATAAAAAATAGAAAAAGTACCAGTAATAACATCTGGCACAGAAGCATCCTCT
*
45353652 CGTGTGCAAATAGCATAAGCCCTAACTGGTGCT
131 CGTGTGCGAATAGCATAAGCCCTAACTGGTGCT
* * *
45353685 TAAATTCTTACTAGACACTAAATTCATGCACACATATGAATGATTCGATCCCGGATCAATCAAAG
1 TAAATTCTTACTAGACACTAAATTCGTGCACACATATGAATGAGTGGATCCCGGATCAATCAAAG
* * *
45353750 CA-TAATATAAGTATAAAAAATAAAAAAAAGTACCAGTAATAACATCTGGCGCAGAAGCATCCTC
66 CAGTAATATCAGTATAAAAAAT-AGAAAAAGTACCAGTAATAACATCTGGCACAGAAGCATCCTC
*
45353814 TCGTGTACGAATAGCATAAGCCCTAACTGGTGCT
130 TCGTGTGCGAATAGCATAAGCCCTAACTGGTGCT
*
45353848 TAAATTCTTACTAGACACTAAATTCGTGCACACATATGAATGAGTGGATCCCAGAGT-AATCAAA
1 TAAATTCTTACTAGACACTAAATTCGTGCACACATATGAATGAGTGGATCCCGGA-TCAATCAAA
* * * *
45353912 GAAGTAATATCAGTATAAAAAACTAGAAAAAGTACTAGTAATAACATCTAGCACAGAAGCATCAT
65 GCAGTAATATCAGTATAAAAAA-TAGAAAAAGTACCAGTAATAACATCTGGCACAGAAGCATCCT
*
45353977 CTCCTGTGCGAATAGCATAAGCCCTAACTGGTGCT
129 CTCGTGTGCGAATAGCATAAGCCCTAACTGGTGCT
45354012 CGTGCCATGG
Statistics
Matches: 298, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
162 18 0.06
163 192 0.64
164 87 0.29
165 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (163 bp):
TAAATTCTTACTAGACACTAAATTCGTGCACACATATGAATGAGTGGATCCCGGATCAATCAAAG
CAGTAATATCAGTATAAAAAATAGAAAAAGTACCAGTAATAACATCTGGCACAGAAGCATCCTCT
CGTGTGCGAATAGCATAAGCCCTAACTGGTGCT
Found at i:45356713 original size:129 final size:129
Alignment explanation
Indices: 45356490--45356733 Score: 382
Period size: 129 Copynumber: 1.9 Consensus size: 129
45356480 GATATAGCCC
* *
45356490 CGACAAGCTTCCAACCCGAATGAGCTTCTGATTCACTATAAAACACAAAAGTAACACAGAGTAAG
1 CGACAAGCTTCCAACCCAAACGAGCTTCTGATTCACTATAAAACACAAAAGTAACACAGAGTAAG
** * *
45356555 CATTTAAGATTAGTAAGTTCCTGTAACTTAGAATTTAACTTACCATTTAATCAAGTAATAGCTT
66 CATTTAAGATTAGTAAGTTCCAATAACTTACAATTTAACTTACAATTTAATCAAGTAATAGCTT
*
45356619 CGACAAGCTTCCAACCCAAACGAGCTTCTGATTCACTATAAAACACGGAAA-TAACACAGAGTAA
1 CGACAAGCTTCCAACCCAAACGAGCTTCTGATTCACTATAAAACAC-AAAAGTAACACAGAGTAA
* * *
45356683 GCATTTAAGCTTAGTAAGTTCGAATGACTTACAATTTAACTTACAATTTAA
65 GCATTTAAGATTAGTAAGTTCCAATAACTTACAATTTAACTTACAATTTAA
45356734 CCTAGCTTCT
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
129 101 0.97
130 3 0.03
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.27
Consensus pattern (129 bp):
CGACAAGCTTCCAACCCAAACGAGCTTCTGATTCACTATAAAACACAAAAGTAACACAGAGTAAG
CATTTAAGATTAGTAAGTTCCAATAACTTACAATTTAACTTACAATTTAATCAAGTAATAGCTT
Found at i:45356726 original size:12 final size:12
Alignment explanation
Indices: 45356709--45356734 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45356699 AGTTCGAATG
45356709 ACTTACAATTTA
1 ACTTACAATTTA
45356721 ACTTACAATTTA
1 ACTTACAATTTA
45356733 AC
1 AC
45356735 CTAGCTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (12 bp):
ACTTACAATTTA
Found at i:45358424 original size:49 final size:49
Alignment explanation
Indices: 45358363--45358593 Score: 283
Period size: 49 Copynumber: 4.7 Consensus size: 49
45358353 TTGAAATTTA
*
45358363 AAAACTCTTTTAAATAATAATTTAAATTCTATTTT-ATTATCT-TTTACT-T
1 AAAACTCTTTTAAATAATAA-TTAAATTATATTTTAATTAT-TATTTA-TAT
* **
45358412 AAAACTCTTTTAAATAATAATTAAATTATGTTTTAATTATTATTTATCC
1 AAAACTCTTTTAAATAATAATTAAATTATATTTTAATTATTATTTATAT
* * *
45358461 AAAACTCTTTTAAATAATAATTAAA-TAGAATTTAATTATCT-TTTATTT
1 AAAACTCTTTTAAATAATAATTAAATTATATTTTAATTAT-TATTTATAT
* *
45358509 AAAACTCTTTTAAATAATAATAATTAAATTCTGTTTTAATTATTATTTATAT
1 AAAACTCTTTT--A-AATAATAATTAAATTATATTTTAATTATTATTTATAT
45358561 AAAACTCTTTTAAATAATAATTAAATTATATTT
1 AAAACTCTTTTAAATAATAATTAAATTATATTT
45358594 CCTTATCTAA
Statistics
Matches: 158, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
48 41 0.26
49 74 0.47
50 2 0.01
51 14 0.09
52 27 0.17
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.49
Consensus pattern (49 bp):
AAAACTCTTTTAAATAATAATTAAATTATATTTTAATTATTATTTATAT
Found at i:45358436 original size:22 final size:22
Alignment explanation
Indices: 45358410--45358485 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 22
45358400 TATCTTTTAC
45358410 TTAAAACTCTTTTAAATAATAA
1 TTAAAACTCTTTTAAATAATAA
* * *
45358432 TTAAATTA-TGTTTTAATTATTATTTA
1 TTAAA--ACTCTTTTAA--A-TAATAA
*
45358458 TCCAAAACTCTTTTAAATAATAA
1 T-TAAAACTCTTTTAAATAATAA
45358481 TTAAA
1 TTAAA
45358486 TAGAATTTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 14
0.64 0.13 0.23
Matches are distributed among these distances:
22 8 0.21
23 12 0.31
24 2 0.05
25 2 0.05
26 12 0.31
27 3 0.08
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (22 bp):
TTAAAACTCTTTTAAATAATAA
Found at i:45358520 original size:26 final size:25
Alignment explanation
Indices: 45358491--45358573 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
45358481 TTAAATAGAA
45358491 TTTAATTATCTTTTATTTAAAACTCT
1 TTTAATTAT-TTTTATTTAAAACTCT
* * ** * * *
45358517 TTTAAATAATAATAATTAAATTCTGT
1 TTTAATTATTTTTATTTAAA-ACTCT
*
45358543 TTTAATTATTATTTATATAAAACTCT
1 TTTAATTATT-TTTATTTAAAACTCT
45358569 TTTAA
1 TTTAA
45358574 ATAATAATTA
Statistics
Matches: 40, Mismatches: 15, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
25 8 0.20
26 26 0.65
27 6 0.15
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (25 bp):
TTTAATTATTTTTATTTAAAACTCT
Found at i:45358601 original size:100 final size:97
Alignment explanation
Indices: 45358363--45358593 Score: 347
Period size: 100 Copynumber: 2.3 Consensus size: 97
45358353 TTGAAATTTA
* *
45358363 AAAACTCTTTTAAATAATAATTTAAATTCTATTTTATTATCTTTTACTTAAAACTCTTTTAAATA
1 AAAACTCTTTTAAATAATAA-TTAAATTATATTTAATTATCTTTTACTTAAAACTCTTTTAAATA
*
45358428 ATAATTAAATTATGTTTTAATTATTATTTATCC
65 ATAATTAAATTATGTTTTAATTATTATTTATAC
* *
45358461 AAAACTCTTTTAAATAATAATTAAA-TAGAATTTAATTATCTTTTATTTAAAACTCTTTTAAATA
1 AAAACTCTTTTAAATAATAATTAAATTA-TATTTAATTATCTTTTACTTAAAACTCTTTT--A-A
* *
45358525 ATAATAATTAAATTCTGTTTTAATTATTATTTATAT
62 ATAATAATTAAATTATGTTTTAATTATTATTTATAC
45358561 AAAACTCTTTTAAATAATAATTAAATTATATTT
1 AAAACTCTTTTAAATAATAATTAAATTATATTT
45358594 CCTTATCTAA
Statistics
Matches: 120, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
96 1 0.01
97 33 0.28
98 20 0.17
99 1 0.01
100 63 0.52
101 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.49
Consensus pattern (97 bp):
AAAACTCTTTTAAATAATAATTAAATTATATTTAATTATCTTTTACTTAAAACTCTTTTAAATAA
TAATTAAATTATGTTTTAATTATTATTTATAC
Found at i:45360874 original size:10 final size:10
Alignment explanation
Indices: 45360859--45360896 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
45360849 TTCAGGTGTA
45360859 TCAATATTTT
1 TCAATATTTT
45360869 TCAATATTTT
1 TCAATATTTT
*
45360879 TAAATATTTT
1 TCAATATTTT
45360889 TCATATAT
1 TCA-ATAT
45360897 ATTTATAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 21 0.84
11 4 0.16
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (10 bp):
TCAATATTTT
Found at i:45360886 original size:20 final size:21
Alignment explanation
Indices: 45360861--45360901 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
45360851 CAGGTGTATC
*
45360861 AATATTTTTCA-ATATTTTTA
1 AATATTTTTCATATATATTTA
45360881 AATATTTTTCATATATATTTA
1 AATATTTTTCATATATATTTA
45360902 TAGTCTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
AATATTTTTCATATATATTTA
Found at i:45361018 original size:24 final size:25
Alignment explanation
Indices: 45360971--45361029 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
45360961 TAATAAATTG
** *
45360971 AAGTAATAAACCTATTCAATTATAT
1 AAGTAATAAACCTATAAAAATATAT
45360996 AAGTAATAAA-CTATAAAAATATAT
1 AAGTAATAAACCTATAAAAATATAT
*
45361020 AAGAAATAAA
1 AAGTAATAAA
45361030 TTGAATTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 20 0.67
25 10 0.33
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (25 bp):
AAGTAATAAACCTATAAAAATATAT
Found at i:45364964 original size:41 final size:41
Alignment explanation
Indices: 45364822--45364968 Score: 141
Period size: 41 Copynumber: 3.5 Consensus size: 41
45364812 AAGTATTCGC
* * * *
45364822 GGCGTTTATGGGTAAAACGCCGCTATTGCTTTACCTTTAGA
1 GGCGTTTATGGGAAAAACGCCGCTATTGTTTTACCTTTTGT
** * *
45364863 GGCGTTTATGATAAAAATGCCGCAATTGTTTTTAACCTTTTGT
1 GGCGTTTATGGGAAAAACGCCGCTATTG-TTTT-ACCTTTTGT
* * ** * *
45364906 GGCATTGATGCAAAAAACACTGCTATTGTTTTACCTTTTGT
1 GGCGTTTATGGGAAAAACGCCGCTATTGTTTTACCTTTTGT
*
45364947 GGCGTTTATGGGGAAAACGCCG
1 GGCGTTTATGGGAAAAACGCCG
45364969 GTAACACTGT
Statistics
Matches: 81, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
41 47 0.58
42 7 0.09
43 27 0.33
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (41 bp):
GGCGTTTATGGGAAAAACGCCGCTATTGTTTTACCTTTTGT
Found at i:45365737 original size:15 final size:14
Alignment explanation
Indices: 45365711--45365743 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
45365701 TTCACCGTCC
45365711 AAAA-AAAATATTG
1 AAAAGAAAATATTG
45365724 AAAAGAAAATTATTG
1 AAAAGAAAA-TATTG
45365739 AAAAG
1 AAAAG
45365744 GGTACACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 4 0.22
15 10 0.56
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (14 bp):
AAAAGAAAATATTG
Found at i:45367031 original size:2 final size:2
Alignment explanation
Indices: 45367024--45367050 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45367014 GATTAAGCCT
45367024 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
45367051 TGTTTTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45368246 original size:2 final size:2
Alignment explanation
Indices: 45368239--45368269 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
45368229 GCCATATCCT
45368239 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
45368270 GTGTGTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:45372130 original size:342 final size:342
Alignment explanation
Indices: 45371505--45372181 Score: 1174
Period size: 342 Copynumber: 2.0 Consensus size: 342
45371495 AAGCATTTAC
45371505 CTTTTCAATCAGTCTGTCCTCTTGTCCTTATTCTGGCTCTCGATCTCTACAGATGAACCGGCCTC
1 CTTTTCAATCAGTCTGTCCTCTTGTCCTTATTCTGGCTCTCGATCTCTACAGATGAACCGGCCTC
*
45371570 CACTAGATCACCTTGATCTCCTCCTTGTTGCATCTTGTCTTCCTCCTTTGTTATACTTTGTATCA
66 CACTAGATCACCTTGATCTCCTCCTTGTTCCATCTTGTCTTCCTCCTTTGTTATACTTTGTATCA
* * * *
45371635 AAAATTGGTGCAGTGAGAGTGTGAAACTCCTGGTTACCCTAATTACCCCGAATGTTGGGAAAGCT
131 AAAATTGGTACAGTGAGAGTGTGAAACTCCCGATTACCCTAATTACCCCGAAAGTTGGGAAAGCT
*
45371700 AGGATTAAATTGAAAGGACTAGTAAATTGCGGGACTCCAATAAGAGGCTAGAAAATTTTAGCGGC
196 AGGATTAAATTGAAAGGACTAGTAAATTGCGGGACTCCAATAAGAGACTAGAAAATTTTAGCGGC
* *
45371765 TAAATTATAACTAGCTGGAATTTGATTCCACTTCAGTTAGATTGGAACTTGCTGGTTCCAAAGTG
261 TAAATTATAAATAGCTGGAATTTGATTCCACTTCAGTTAGATTGGAACTAGCTGGTTCCAAAGTG
45371830 AGAGACAAAAACATTAT
326 AGAGACAAAAACATTAT
* *
45371847 CTTTTCAATCAGTTTGTCCTTTTGTCCTTATTCTGGCTCTCGATCTCTACAGATGAACCGGCCTC
1 CTTTTCAATCAGTCTGTCCTCTTGTCCTTATTCTGGCTCTCGATCTCTACAGATGAACCGGCCTC
45371912 CACTAGATCACCTTGATCTCCTCCTTGTTCCATCTTGTCTTCCTCCTTTGTTATACTTTGTATCA
66 CACTAGATCACCTTGATCTCCTCCTTGTTCCATCTTGTCTTCCTCCTTTGTTATACTTTGTATCA
* * *
45371977 ACAATTGGTACAGTGAGAGTGTGTAACTCCCGATTATCCTAATTACCCCGAAAGTTGGGAAAGCT
131 AAAATTGGTACAGTGAGAGTGTGAAACTCCCGATTACCCTAATTACCCCGAAAGTTGGGAAAGCT
* ** *
45372042 AGGATTAAATTGAAAGGACTAGTAAATTGTGGGACTCCAATGGGAGATTAGAAAATTTTAGCGGC
196 AGGATTAAATTGAAAGGACTAGTAAATTGCGGGACTCCAATAAGAGACTAGAAAATTTTAGCGGC
* * *
45372107 TGAATTATAAATAGTTGGAATTTGATTCCACTTCAGTTAGATTGGAACTAGTTGGTTCCAAAGTG
261 TAAATTATAAATAGCTGGAATTTGATTCCACTTCAGTTAGATTGGAACTAGCTGGTTCCAAAGTG
45372172 AGAGACAAAA
326 AGAGACAAAA
45372182 TGATTAGGAA
Statistics
Matches: 315, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
342 315 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (342 bp):
CTTTTCAATCAGTCTGTCCTCTTGTCCTTATTCTGGCTCTCGATCTCTACAGATGAACCGGCCTC
CACTAGATCACCTTGATCTCCTCCTTGTTCCATCTTGTCTTCCTCCTTTGTTATACTTTGTATCA
AAAATTGGTACAGTGAGAGTGTGAAACTCCCGATTACCCTAATTACCCCGAAAGTTGGGAAAGCT
AGGATTAAATTGAAAGGACTAGTAAATTGCGGGACTCCAATAAGAGACTAGAAAATTTTAGCGGC
TAAATTATAAATAGCTGGAATTTGATTCCACTTCAGTTAGATTGGAACTAGCTGGTTCCAAAGTG
AGAGACAAAAACATTAT
Found at i:45381973 original size:20 final size:21
Alignment explanation
Indices: 45381927--45381973 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
45381917 TTTTCCAGGT
45381927 GGTATCGATACTACTTAAAGGA
1 GGTATCGATACTAC-TAAAGGA
* *
45381949 AGTATCGATACTAC-AAAGGC
1 GGTATCGATACTACTAAAGGA
45381969 GGTAT
1 GGTAT
45381974 AGATGCCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 9 0.41
22 13 0.59
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (21 bp):
GGTATCGATACTACTAAAGGA
Found at i:45402674 original size:24 final size:24
Alignment explanation
Indices: 45402647--45402696 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
45402637 TTCATAGGTC
*
45402647 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATGCT
* *
45402671 AAATATATTATACTAATAAATTCT
1 AAATAAATTATACTAATAAATGCT
45402695 AA
1 AA
45402697 CTATTCTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATGCT
Found at i:45404293 original size:25 final size:27
Alignment explanation
Indices: 45404228--45404294 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 27
45404218 AATATGTACA
45404228 TAAAAAATAAATATACATATATATAGAT
1 TAAAAAATAAAT-TACATATATATAGAT
45404256 TAAAAAA-ATAATTACATATGA-A-A-AT
1 TAAAAAATA-AATTACATAT-ATATAGAT
45404281 TAAAAAATAAATTA
1 TAAAAAATAAATTA
45404295 ATAATAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
25 14 0.39
26 2 0.06
27 9 0.25
28 11 0.31
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (27 bp):
TAAAAAATAAATTACATATATATAGAT
Found at i:45404293 original size:139 final size:140
Alignment explanation
Indices: 45404036--45404307 Score: 301
Period size: 141 Copynumber: 1.9 Consensus size: 140
45404026 TATACGCATT
* * * *
45404036 TATATATATAAATATAAAAGAATATTCATTTAAAATAAATAAATATGTATACATGTACATATAAA
1 TATATATATAAATATAAAAGAATATTCAGTTAAAATAAATAAATATG-ATACATGAAAAAATAAA
* * * **
45404101 ATATATATATATATAGATTAAAAATAATTAAATAATATCTACATTATCAAAATTAATAA-AAATA
65 ATATACATATATATAGATTAAAAATAATTAAATAAAATCTAAAAAAT-AAAATTAATAATAAATA
45404165 AATAAATATGTG
129 AATAAATATGTG
45404177 TATATATATAAATATGAGAAA-AATATT-AGTTAAAA-AATATAAATATG-TACAT-AAAAAAT-
1 TATATATATAAATAT-A-AAAGAATATTCAGTTAAAATAA-ATAAATATGATACATGAAAAAATA
45404236 AAATATACATATATATAGATTAAAAAAATAATTACATATGAAAAT-TAAAAAAT-AAATTAATAA
63 AAATATACATATATATAGATT--AAAAATAATTA-A-AT-AAAATCTAAAAAATAAAATTAATAA
*
45404299 TAATTAAAT
123 TAAATAAAT
45404308 TATTAAAATT
Statistics
Matches: 112, Mismatches: 10, Indels: 19
0.79 0.07 0.13
Matches are distributed among these distances:
137 20 0.18
138 4 0.04
139 26 0.23
140 10 0.09
141 38 0.34
142 11 0.10
143 3 0.03
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.34
Consensus pattern (140 bp):
TATATATATAAATATAAAAGAATATTCAGTTAAAATAAATAAATATGATACATGAAAAAATAAAA
TATACATATATATAGATTAAAAATAATTAAATAAAATCTAAAAAATAAAATTAATAATAAATAAA
TAAATATGTG
Found at i:45404319 original size:14 final size:14
Alignment explanation
Indices: 45404277--45404324 Score: 57
Period size: 15 Copynumber: 3.6 Consensus size: 14
45404267 TTACATATGA
45404277 AAATTAA-AAAA-T
1 AAATTAATAAAATT
45404289 AAATTAATAATAATT
1 AAATTAATAA-AATT
*
45404304 AAATTATTAAAATT
1 AAATTAATAAAATT
45404318 -AATTAAT
1 AAATTAAT
45404325 TTTAAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 7 0.23
13 8 0.26
14 6 0.19
15 10 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATTAATAAAATT
Found at i:45405609 original size:24 final size:24
Alignment explanation
Indices: 45405574--45405642 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
45405564 CCAATCCACT
* *
45405574 CCACTGCTAAGTCAAGGACATACC
1 CCACTGCAAAGTCAGGGACATACC
*
45405598 CCACTGCAAAGTCAGGGACATACT
1 CCACTGCAAAGTCAGGGACATACC
45405622 CCACTGCAAAGTCAGGGACAT
1 CCACTGCAAAGTCAGGGACAT
45405643 GGGGCTTGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.33, C:0.30, G:0.20, T:0.16
Consensus pattern (24 bp):
CCACTGCAAAGTCAGGGACATACC
Found at i:45405777 original size:44 final size:44
Alignment explanation
Indices: 45405729--45405919 Score: 143
Period size: 44 Copynumber: 4.3 Consensus size: 44
45405719 TGCTGTGACT
* *
45405729 TCAGAGAGATAAGATCTGTTATTTTAATCTGCTCCGCTGTAACC
1 TCAGGGAGATAAGATCTGTTATTTTAATCTGCTCCACTGTAACC
* * *** * *
45405773 TCAGAGAGATAGGAT-TAGTGGCTTCAATCTACTCCACTGTAACC
1 TCAGGGAGATAAGATCT-GTTATTTTAATCTGCTCCACTGTAACC
* * * ** * * * *
45405817 TCAGGGAGGTAAAATCCGCCATCTTTAGTCTGCCCCACTGCAACT
1 TCAGGGAGATAAGATCTGTTAT-TTTAATCTGCTCCACTGTAACC
* * * *
45405862 TCAGGGGGATAAGACCTGCTTA-CTTAGTCTGCTCCACTGTAACC
1 TCAGGGAGATAAGATCTG-TTATTTTAATCTGCTCCACTGTAACC
45405906 TCAGGGAGATAAGA
1 TCAGGGAGATAAGA
45405920 CCTGATGTGA
Statistics
Matches: 109, Mismatches: 34, Indels: 8
0.72 0.23 0.05
Matches are distributed among these distances:
43 1 0.01
44 78 0.72
45 29 0.27
46 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (44 bp):
TCAGGGAGATAAGATCTGTTATTTTAATCTGCTCCACTGTAACC
Found at i:45406312 original size:57 final size:56
Alignment explanation
Indices: 45406136--45406299 Score: 186
Period size: 57 Copynumber: 2.9 Consensus size: 56
45406126 AGGGAGATAA
* * * *
45406136 GATCTGTAATTTTCAACCTATTCCACTGCTGTCCAGGGAAATAGGACTGAGGTCTTC
1 GATCTGTAATTTTCAATCTATTCCACTGCTGTCAAGGGAGATAGGACT-AGGGCTTC
* * * * * * *
45406193 GATTTGTAATTTTCAATCCACTCCTCTGTTGTCCAA-GGAGATAGGACTAGGGTTTTT
1 GATCTGTAATTTTCAATCTATTCCACTGCTGT-CAAGGGAGATAGGACTAGGG-CTTC
*
45406250 GATCTGTAATTTTCAATCTATTCCACTACTGTCAAGGGAGATAGGACTAG
1 GATCTGTAATTTTCAATCTATTCCACTGCTGTCAAGGGAGATAGGACTAG
45406300 TGGGTTCAAT
Statistics
Matches: 87, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
56 6 0.07
57 79 0.91
58 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (56 bp):
GATCTGTAATTTTCAATCTATTCCACTGCTGTCAAGGGAGATAGGACTAGGGCTTC
Found at i:45406471 original size:44 final size:44
Alignment explanation
Indices: 45406349--45406471 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
45406339 ATTCGCCATT
* * * * *
45406349 TTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATA
1 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTGTAATA
45406393 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCT-TCAATA
1 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTGT-AATA
**
45406437 TTCAACCTACTCCACTGCTGCTCAGAAAGATAAGG
1 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG
45406472 CTCGCTTCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
43 1 0.01
44 70 0.99
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTGTAATA
Found at i:45406640 original size:147 final size:147
Alignment explanation
Indices: 45406464--45406733 Score: 441
Period size: 147 Copynumber: 1.8 Consensus size: 147
45406454 CTGCTCAGAA
* * * * * *
45406464 AGATAAGGCTCGCTTCCTTTAGCTTTAATCTGCTCTGCTGCAACGCTAGGGACATAAGATTCGCT
1 AGATAAGACTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAACGCTAGGGAAACAAGATTCGCT
45406529 ACCTTTAGCTTTAATCTACTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACCACTTTAA
66 ACCTTTAGCTTTAATCTACTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACCACTTTAA
45406594 TTCGCTCAACGCCAGTG
131 TTCGCTCAACGCCAGTG
* *
45406611 AGATAAGACTCGCTGCCCTCAGCTTTAATCTGCTCTGTTGCAATGCTAGGGAAACAAGATTCGCT
1 AGATAAGACTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAACGCTAGGGAAACAAGATTCGCT
** *
45406676 ACCTTTAGCTTTAATCTGTTCCATTATAATGCCAAAGAGATAGGATTCGCTGCCCACC
66 ACCTTTAGCTTTAATCTACTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACC
45406734 GCTGTAATCT
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
147 112 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (147 bp):
AGATAAGACTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAACGCTAGGGAAACAAGATTCGCT
ACCTTTAGCTTTAATCTACTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACCACTTTAA
TTCGCTCAACGCCAGTG
Found at i:45406890 original size:169 final size:169
Alignment explanation
Indices: 45406611--45407145 Score: 874
Period size: 169 Copynumber: 3.2 Consensus size: 169
45406601 AACGCCAGTG
* * *
45406611 AGATAAGACTCGCTGCCCTCAGCTTTAATCTGCTCTGTTGCAATGCTAGGGAAACAAGATTCGCT
1 AGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAACGCTAGGGAAACAAGATTCGCT
**
45406676 ACCTTTAGCTTTAATCTGTTCCATTATAATGCCAAAGAGATAGGATTCGCTGCCCACCGCTGTAA
66 ATGTTTAGCTTTAATCTGTTCCATTATAATGCCAAAGAGATAGGATTCGCTGCCCACCGCTGTAA
* *
45406741 TCTGCTCCACCTTAGCTATTCTAAGTCTTAAAGCCAGAA
131 TCTGCTCCACCTCAGCTATTCTAAGTCTTAAAGCCAGGA
45406780 AGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAACGCTAGGGAAACAAGATTCGCT
1 AGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAACGCTAGGGAAACAAGATTCGCT
*
45406845 ATGTTTAGCTTTAATCTGTTCCATTATAATGCCAAAGAGATAGGATTCGCTGCCCACCACTGTAA
66 ATGTTTAGCTTTAATCTGTTCCATTATAATGCCAAAGAGATAGGATTCGCTGCCCACCGCTGTAA
45406910 TCTGCTCCACCTCAGCTATTCTAAGTCTTAAAGCCAGGA
131 TCTGCTCCACCTCAGCTATTCTAAGTCTTAAAGCCAGGA
*
45406949 AGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCT
1 AGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAACGCTAGGGAAACAAGATTCGCT
* * * *
45407014 ATGTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTGCCCACAGCTTTAA
66 ATGTTTAGCTTTAATCTGTTCCATTATAATGCCAAAGAGATAGGATTCGCTGCCCACCGCTGTAA
** * *
45407079 TCCACTCCACCTCAGCTATTCCAAGTCTTAACA-CCAGGG
131 TCTGCTCCACCTCAGCTATTCTAAGTCTTAA-AGCCAGGA
* * *
45407118 ATATAAGATTGGTTGCCCTCAGCTTTAA
1 AGATAAGATTCGCTGCCCTCAGCTTTAA
45407146 CGCCAGGGAG
Statistics
Matches: 344, Mismatches: 21, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
169 343 1.00
170 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (169 bp):
AGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAACGCTAGGGAAACAAGATTCGCT
ATGTTTAGCTTTAATCTGTTCCATTATAATGCCAAAGAGATAGGATTCGCTGCCCACCGCTGTAA
TCTGCTCCACCTCAGCTATTCTAAGTCTTAAAGCCAGGA
Found at i:45407153 original size:36 final size:36
Alignment explanation
Indices: 45407106--45407181 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
45407096 ATTCCAAGTC
* * *
45407106 TTAACACCAGGGATATAAGATTGGTTGCCCTCAGCT
1 TTAACACCAGGGAGATAAGATTCGCTGCCCTCAGCT
* *
45407142 TTAACGCCAGGGAGATAAGATTCGCTGCCCTTAGCT
1 TTAACACCAGGGAGATAAGATTCGCTGCCCTCAGCT
45407178 TTAA
1 TTAA
45407182 TTTGCTCCGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (36 bp):
TTAACACCAGGGAGATAAGATTCGCTGCCCTCAGCT
Found at i:45413874 original size:27 final size:27
Alignment explanation
Indices: 45413805--45413891 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 27
45413795 AATATTAGTT
* *
45413805 AAAA-AATATA-AATATGTACA-TAAA
1 AAAATAATATACAATATGAATATTAAA
*
45413829 AAAATAAATATACATATATTTATATATTAAA
1 AAAAT-AATATACA-ATA-TGA-ATATTAAA
*
45413860 AAAATAAT-TAC-ATATGAATATTATA
1 AAAATAATATACAATATGAATATTAAA
45413885 AAAATAA
1 AAAATAA
45413892 AATAATAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
24 4 0.08
25 14 0.27
26 8 0.16
27 4 0.08
28 3 0.06
29 4 0.08
30 5 0.10
31 9 0.18
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAATAATATACAATATGAATATTAAA
Found at i:45432503 original size:14 final size:14
Alignment explanation
Indices: 45432484--45432514 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45432474 GTGATTTTTT
*
45432484 TAATCTAAATTTAC
1 TAATCTAAATTAAC
45432498 TAATCTAAATTAAC
1 TAATCTAAATTAAC
45432512 TAA
1 TAA
45432515 GGACACAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:45435189 original size:6 final size:6
Alignment explanation
Indices: 45435178--45435253 Score: 64
Period size: 6 Copynumber: 12.2 Consensus size: 6
45435168 GAAGTACAAG
* * *
45435178 AAAATA AAAATA AAACA-A AACAACTA AAAATA GAAATA AACATA AACATA
1 AAAATA AAAATA AAA-ATA AA-AA-TA AAAATA AAAATA AAAATA AAAATA
* *
45435228 AAAAGA TAAAATA AAATTA AAAATA A
1 AAAATA -AAAATA AAAATA AAAATA A
45435254 TACAAATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
6 45 0.79
7 9 0.16
8 3 0.05
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:45435207 original size:26 final size:25
Alignment explanation
Indices: 45435178--45435243 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
45435168 GAAGTACAAG
45435178 AAAATAAAAATAAAACA-AAACAACTA
1 AAAATAAAAATAAAACATAAAC-A-TA
*
45435204 AAAATAGAAAT-AAACATAAACATA
1 AAAATAAAAATAAAACATAAACATA
*
45435228 AAAAGATAAAATAAAA
1 AAAATA-AAAATAAAA
45435244 TTAAAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 7 0.21
25 10 0.29
26 17 0.50
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.14
Consensus pattern (25 bp):
AAAATAAAAATAAAACATAAACATA
Found at i:45435248 original size:25 final size:25
Alignment explanation
Indices: 45435178--45435253 Score: 61
Period size: 25 Copynumber: 3.0 Consensus size: 25
45435168 GAAGTACAAG
*
45435178 AAAATAAAAATAAAACA-AAACAACT-A
1 AAAATAGAAAT-AAACATAAA-AA-TAA
*
45435204 AAAATAGAAATAAACATAAACATAA
1 AAAATAGAAATAAACATAAAAATAA
45435229 AAAGATA-AAATAAA-ATTAAAAATAA
1 AAA-ATAGAAATAAACA-TAAAAATAA
45435254 TACAAATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
24 2 0.05
25 25 0.58
26 16 0.37
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.16
Consensus pattern (25 bp):
AAAATAGAAATAAACATAAAAATAA
Found at i:45445120 original size:14 final size:14
Alignment explanation
Indices: 45445101--45445128 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45445091 TATATCTACT
45445101 CATATGTTGAAATC
1 CATATGTTGAAATC
45445115 CATATGTTGAAATC
1 CATATGTTGAAATC
45445129 GTATCTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
CATATGTTGAAATC
Found at i:45451627 original size:41 final size:41
Alignment explanation
Indices: 45451545--45451829 Score: 276
Period size: 41 Copynumber: 7.0 Consensus size: 41
45451535 CTAATGCATG
* * * *
45451545 GGGCTTTAGCGGAGTTTTTTAA-AACGCACCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAA-GCGCTGCTAATGCTCA
* *
45451586 GGGCTTTAGCGGCGTTTTTGAAGAAGCG-TCGTTAATACTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCT-GCTAATGCTCA
* * * *
45451627 GGGCTTTAGAGGCGTTTTTGAAGAAGCACCGCTATTGCTCTA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCTGCTAATGCTC-A
** *
45451669 --TTTTTAGCGGCGTTTTT-ATGAAAGCGCTGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAG-AAGCGCTGCTAATGCTCA
* * * *
45451708 GGGTTTTAGCGGCATTTTTTAAGAAGCGCTGCTGATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCTGCTAATGCTCA
* * * *
45451749 AGGCTTTAACGGCGTGTTT-AATGAAGCACTGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAA-GAAGCGCTGCTAATGCTCA
* *
45451790 GGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTC
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCTGCTAATGCTC
45451830 TATTTTAGCG
Statistics
Matches: 200, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
39 3 0.01
40 30 0.15
41 160 0.80
42 7 0.04
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCTGCTAATGCTCA
Found at i:45451656 original size:82 final size:80
Alignment explanation
Indices: 45451545--45451829 Score: 315
Period size: 82 Copynumber: 3.5 Consensus size: 80
45451535 CTAATGCATG
* *
45451545 GGGCTTTAGCGGAGTTTTTTAA-AACGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAG
1 GGGCTTTAGCGGCGTTTTTGAAGAA-GCACCGCTAATGCTCA-GGCTTTAGCGGCGTTTTT-AAG
* *
45451609 AAGCG-TCGTTAATACTCA
63 AAGCGCT-GCTAATGCTCA
* * ** *
45451627 GGGCTTTAGAGGCGTTTTTGAAGAAGCACCGCTATTGCTCTA-TTTTTAGCGGCGTTTTTATGAA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTC-AGGCTTTAGCGGCGTTTTTAAG-A
45451691 AGCGCTGCTAATGCTCA
64 AGCGCTGCTAATGCTCA
* * * * * * * *
45451708 GGGTTTTAGCGGCATTTTTTAAGAAGCGCTGCTGATGCTCAAGGCTTTAACGGCGTGTTTAATGA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTC-AGGCTTTAGCGGCGTTTTTAA-GA
*
45451773 AGCACTGCTAATGCTCA
64 AGCGCTGCTAATGCTCA
45451790 GGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTC
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTC
45451830 TATTTTAGCG
Statistics
Matches: 167, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
80 2 0.01
81 62 0.37
82 99 0.59
83 4 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (80 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTCAGGCTTTAGCGGCGTTTTTAAGAAG
CGCTGCTAATGCTCA
Found at i:45451806 original size:163 final size:162
Alignment explanation
Indices: 45451549--45451847 Score: 417
Period size: 163 Copynumber: 1.8 Consensus size: 162
45451539 TGCATGGGGC
* * * *
45451549 TTTAGCGGAGTTTTTTAAAACGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGCG
1 TTTAGCGGAGTTTTTTAAAACGCACCGCTAATGCTCAAGGCTTTAACGGCGTGTTTGAAGAAGCC
* *
45451614 TCGTTAATACTCAGGGCTTTAGAGGCGTTTTTGAAGAAGCACCGCTATTGCTCTATTTTTAGCGG
66 TCGCTAATACTCAGGGCTTTAGAGGCGTTTTTGAAGAAGCACCGCTAATGCTCTA-TTTTAGCGG
*
45451679 CGTTTTTATGAAAGCGCTGCTAATGCTCAGGGT
130 CATTTTTATGAAAGCGCTGCTAATGCTCAGGGT
* * *
45451712 TTTAGCGGCA-TTTTTTAAGAA-GCGCTGCTGATGCTCAAGGCTTTAACGGCGTGTTT-AATGAA
1 TTTAGCGG-AGTTTTTTAA-AACGCACCGCTAATGCTCAAGGCTTTAACGGCGTGTTTGAA-GAA
* *
45451774 GCACT-GCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTCTATTTTAG
63 GC-CTCGCTAATACTCAGGGCTTTAGAGGCGTTTTTGAAGAAGCACCGCTAATGCTCTATTTTAG
45451838 CGGCATTTTT
127 CGGCATTTTT
45451848 GAAAAAGCGC
Statistics
Matches: 120, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
162 17 0.14
163 99 0.82
164 4 0.03
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (162 bp):
TTTAGCGGAGTTTTTTAAAACGCACCGCTAATGCTCAAGGCTTTAACGGCGTGTTTGAAGAAGCC
TCGCTAATACTCAGGGCTTTAGAGGCGTTTTTGAAGAAGCACCGCTAATGCTCTATTTTAGCGGC
ATTTTTATGAAAGCGCTGCTAATGCTCAGGGT
Found at i:45452236 original size:22 final size:21
Alignment explanation
Indices: 45452188--45452264 Score: 64
Period size: 22 Copynumber: 3.6 Consensus size: 21
45452178 ATGGTTTAGA
* * *
45452188 GTTTAAGGTTTAGGAGTTACTA
1 GTTTAAGGTTTATGAATTA-TG
*
45452210 TTTTAAGGTTTATGAATTATGG
1 GTTTAAGGTTTATGAATTAT-G
* * *
45452232 GTTTAGGGGTTATGATTTATG
1 GTTTAAGGTTTATGAATTATG
*
45452253 GTTTACGGTTTA
1 GTTTAAGGTTTA
45452265 AAGGCTGGGG
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 12 0.27
22 32 0.73
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (21 bp):
GTTTAAGGTTTATGAATTATG
Found at i:45452322 original size:15 final size:15
Alignment explanation
Indices: 45452297--45452343 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
45452287 AGGTTATGTG
45452297 TTAAGGGTTTAGGGTT
1 TTAA-GGTTTAGGGTT
* *
45452313 TTATGGTTTAGGATT
1 TTAAGGTTTAGGGTT
45452328 TTAAGGTTTAGGGTT
1 TTAAGGTTTAGGGTT
45452343 T
1 T
45452344 AGATTAACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 24 0.89
16 3 0.11
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (15 bp):
TTAAGGTTTAGGGTT
Found at i:45452345 original size:7 final size:7
Alignment explanation
Indices: 45452272--45452345 Score: 51
Period size: 7 Copynumber: 10.1 Consensus size: 7
45452262 TTAAAGGCTG
45452272 GGGTTTA
1 GGGTTTA
*
45452279 AGGTTTA
1 GGGTTTA
45452286 GAGG-TTA
1 G-GGTTTA
* *
45452293 TGTGTTAA
1 -GGGTTTA
45452301 GGGTTTA
1 GGGTTTA
45452308 GGGTTTTA
1 GGG-TTTA
*
45452316 TGGTTTA
1 GGGTTTA
*
45452323 GGATTTTA
1 GG-GTTTA
*
45452331 AGGTTTA
1 GGGTTTA
45452338 GGGTTTA
1 GGGTTTA
45452345 G
1 G
45452346 ATTAACTAGT
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
7 34 0.68
8 16 0.32
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (7 bp):
GGGTTTA
Found at i:45453466 original size:4 final size:4
Alignment explanation
Indices: 45453457--45453490 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
45453447 CTTGCTTTCT
45453457 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CT
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CT
45453491 GCGACATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (4 bp):
CTCC
Found at i:45459528 original size:21 final size:21
Alignment explanation
Indices: 45459502--45459547 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
45459492 ATATATATAT
*
45459502 GTTTAGCTTAGTATTGATCTA
1 GTTTAGCTTAATATTGATCTA
* *
45459523 GTTTAGCTTAATATTGGTCTG
1 GTTTAGCTTAATATTGATCTA
45459544 GTTT
1 GTTT
45459548 TTTTACATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.50
Consensus pattern (21 bp):
GTTTAGCTTAATATTGATCTA
Found at i:45462137 original size:43 final size:42
Alignment explanation
Indices: 45462005--45462121 Score: 148
Period size: 41 Copynumber: 2.8 Consensus size: 42
45461995 TAAAGGACAT
* * *
45462005 GCGTTTGTGACAAAAGCGTCGCTAAAGTTCATGACCTTTAGTG
1 GCGTTTGTGA-AAAAGCGTCGTTAAAGGTCATGACCTTTAGCG
* *
45462048 GCGTTTGTG-ACAAGCGTCGTT-AAGGACCATGACCTTTAGCG
1 GCGTTTGTGAAAAAGCGTCGTTAAAGG-TCATGACCTTTAGCG
45462089 GCGTTTGTGATAAAAGCGTCGTTAAAGGTCATG
1 GCGTTTGTGA-AAAAGCGTCGTTAAAGGTCATG
45462122 GTCTTTAACG
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
40 3 0.05
41 32 0.51
43 24 0.38
44 4 0.06
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
GCGTTTGTGAAAAAGCGTCGTTAAAGGTCATGACCTTTAGCG
Found at i:45463788 original size:22 final size:21
Alignment explanation
Indices: 45463763--45463806 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
45463753 TGATAAAATT
45463763 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
45463785 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
45463806 T
1 T
45463807 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:45471825 original size:3 final size:3
Alignment explanation
Indices: 45471817--45471866 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
45471807 TTGGCATACT
45471817 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45471865 TT
1 TT
45471867 TTGGTGGAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:45472122 original size:2 final size:2
Alignment explanation
Indices: 45472115--45472139 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45472105 CCCACAATAC
45472115 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
45472140 GGGGTGAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45473289 original size:9 final size:9
Alignment explanation
Indices: 45473272--45473302 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45473262 TCGAGTTGAT
45473272 TCGAATAAC
1 TCGAATAAC
*
45473281 TCGATTAAC
1 TCGAATAAC
45473290 TCGAATAAC
1 TCGAATAAC
45473299 TCGA
1 TCGA
45473303 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:45474673 original size:89 final size:89
Alignment explanation
Indices: 45474520--45474731 Score: 327
Period size: 89 Copynumber: 2.4 Consensus size: 89
45474510 TCAAAATAAT
* * *
45474520 TGTATT-ATTTCTTTAGAGTGTTTTTATTTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGG
1 TGTATTAATTTC-TTAGAATGTTTGTA--TTTTTTATATCTATAAATTTAATATAGTTGTTTAGG
45474584 ATTTAAGGTATCATTTTTATATTTTCG
63 ATTTAAGGTATCATTTTTATATTTTCG
*
45474611 TGTATTAATTTCTTAGAATGTTTGTATTTTTTATATCTGTAAATTTAATATAGTTGTTTAGGATT
1 TGTATTAATTTCTTAGAATGTTTGTATTTTTTATATCTATAAATTTAATATAGTTGTTTAGGATT
* *
45474676 TAATGTTTCATTTTTATATTTTCG
66 TAAGGTATCATTTTTATATTTTCG
*
45474700 CGTATTAATTTCTTAGAATGTTTGTATTTTTT
1 TGTATTAATTTCTTAGAATGTTTGTATTTTTT
45474732 TTTTGTATCT
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
89 90 0.80
91 18 0.16
92 5 0.04
ACGTcount: A:0.25, C:0.05, G:0.13, T:0.58
Consensus pattern (89 bp):
TGTATTAATTTCTTAGAATGTTTGTATTTTTTATATCTATAAATTTAATATAGTTGTTTAGGATT
TAAGGTATCATTTTTATATTTTCG
Found at i:45475433 original size:21 final size:21
Alignment explanation
Indices: 45475409--45475460 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
45475399 CATCTTAAAC
*
45475409 TTAAATTAAATAATAAAAATG
1 TTAAATTAAATAACAAAAATG
*
45475430 TTAAGA-TAAATAACATAAATG
1 TTAA-ATTAAATAACAAAAATG
45475451 TTAAAATTAA
1 TT-AAATTAA
45475461 TCAAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.33
Consensus pattern (21 bp):
TTAAATTAAATAACAAAAATG
Found at i:45477337 original size:29 final size:29
Alignment explanation
Indices: 45477299--45477358 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
45477289 TTATCATTAA
45477299 TGAAATCAACTTAAATAATCTTTAATAAT
1 TGAAATCAACTTAAATAATCTTTAATAAT
45477328 TGAAATCAACTTAAATAATCTTTAATAAT
1 TGAAATCAACTTAAATAATCTTTAATAAT
45477357 TG
1 TG
45477359 TCCACAAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (29 bp):
TGAAATCAACTTAAATAATCTTTAATAAT
Found at i:45484608 original size:49 final size:48
Alignment explanation
Indices: 45484473--45484614 Score: 167
Period size: 49 Copynumber: 2.9 Consensus size: 48
45484463 AACATCGACT
* * *
45484473 GCCAACCTGGTTAACAACTAACATGTCCTACCAGTGGGCCAACATACAC
1 GCCAACCTAGTT-ACAACTAACATGTCCTACCAGTGGTCCATCATACAC
* * *
45484522 GCCAACCTAGTTAAACACTAACATGTCCTACCAGTGGTCTATCATGCAC
1 GCCAACCTAGTTACA-ACTAACATGTCCTACCAGTGGTCCATCATACAC
* * * *
45484571 TCCCACCTAGTTAGCAACTAGCATGTCCTACTAGTGGTCCATCA
1 GCCAACCTAGTTA-CAACTAACATGTCCTACCAGTGGTCCATCA
45484615 CATCTGTCAT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
48 2 0.03
49 76 0.96
50 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (48 bp):
GCCAACCTAGTTACAACTAACATGTCCTACCAGTGGTCCATCATACAC
Found at i:45484842 original size:21 final size:20
Alignment explanation
Indices: 45484797--45484836 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
45484787 TAAGCTACAC
*
45484797 AACTCAGATAAGATAGAAGAA
1 AACTCAGATAAGA-AGAAAAA
45484818 AACTCAGATAAG-AGAAAAA
1 AACTCAGATAAGAAGAAAAA
45484837 CGAACTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.60, C:0.10, G:0.17, T:0.12
Consensus pattern (20 bp):
AACTCAGATAAGAAGAAAAA
Found at i:45495383 original size:103 final size:101
Alignment explanation
Indices: 45495206--45495399 Score: 264
Period size: 103 Copynumber: 1.9 Consensus size: 101
45495196 GAATTGATGA
* ** * * **
45495206 ATAAGACCATGATTGGACCATGGCAATGTTTGGATGTAAGACCCTAGCTGGGCTATGGCATTTTA
1 ATAAGACCACGATTGGACCATGGCAATGTTACGATGTAAGACCATAGCTGCGCTATGGCATCCTA
45495271 ATGAAAAGACCATAACTGGGTTATGGCACTTTGAAC
66 ATGAAAAGACCATAACTGGGTTATGGCACTTTGAAC
* *
45495307 ATAAGACCACGGTTGGACCATGGCAGTATGTATACG-TGTAAGACTATAGCTGCGCTATGGCATC
1 ATAAGACCACGATTGGACCATGGCA--ATGT-TACGATGTAAGACCATAGCTGCGCTATGGCATC
*
45495371 CTAATGATAAGACCATAACTGGGTTATGG
63 CTAATGAAAAGACCATAACTGGGTTATGG
45495400 AAATAGTGTA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
101 23 0.29
103 55 0.69
104 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (101 bp):
ATAAGACCACGATTGGACCATGGCAATGTTACGATGTAAGACCATAGCTGCGCTATGGCATCCTA
ATGAAAAGACCATAACTGGGTTATGGCACTTTGAAC
Found at i:45498250 original size:30 final size:30
Alignment explanation
Indices: 45498209--45498292 Score: 123
Period size: 30 Copynumber: 2.8 Consensus size: 30
45498199 AAATTTCGTG
45498209 TTTTTTAAAAATTACATTTTGACCCCTAAAC
1 TTTTTT-AAAATTACATTTTGACCCCTAAAC
* *
45498240 TTTTTTAAAATTACATTTTAACCCTTAAAC
1 TTTTTTAAAATTACATTTTGACCCCTAAAC
* *
45498270 TTTCTTAAAATTACAATTTGACC
1 TTTTTTAAAATTACATTTTGACC
45498293 TCAAATTTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 42 0.88
31 6 0.12
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (30 bp):
TTTTTTAAAATTACATTTTGACCCCTAAAC
Found at i:45498678 original size:20 final size:21
Alignment explanation
Indices: 45498647--45498687 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
45498637 TGGGGTTTTT
45498647 GAAAATAGAAGAGAAA-AAAGA
1 GAAAATAGAAGA-AAAGAAAGA
45498668 GAAAA-AGAAGAAAAGAAAGA
1 GAAAATAGAAGAAAAGAAAGA
45498688 AAGGAGAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 11 0.58
21 5 0.26
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (21 bp):
GAAAATAGAAGAAAAGAAAGA
Found at i:45498684 original size:23 final size:23
Alignment explanation
Indices: 45498647--45498718 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
45498637 TGGGGTTTTT
* *
45498647 GAAAATAGAAGAGAAAAAAGAGA
1 GAAAAGAGAAAAGAAAAAAGAGA
45498670 -AAAAGAAGAAAAGAAAGAAAGGAGA
1 GAAAAG-AGAAAAGAAA-AAA-GAGA
*
45498695 GGAAAGAG--AAGAAAAAAGAGA
1 GAAAAGAGAAAAGAAAAAAGAGA
45498716 GAA
1 GAA
45498719 GAGGAGAGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 15 0.37
24 3 0.07
25 6 0.15
26 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.01
Consensus pattern (23 bp):
GAAAAGAGAAAAGAAAAAAGAGA
Found at i:45498714 original size:19 final size:19
Alignment explanation
Indices: 45498663--45498714 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
45498653 AGAAGAGAAA
*
45498663 AAAGAGAAAAAGAAGAAAAG
1 AAAGA-AAAAAGAGGAAAAG
**
45498683 AAAGAAAGGAGAGG-AAAG
1 AAAGAAAAAAGAGGAAAAG
45498701 AGAAGAAAAAAGAG
1 A-AAGAAAAAAGAG
45498715 AGAAGAGGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 5 0.19
19 16 0.62
20 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
AAAGAAAAAAGAGGAAAAG
Found at i:45498731 original size:28 final size:29
Alignment explanation
Indices: 45498672--45498740 Score: 72
Period size: 31 Copynumber: 2.4 Consensus size: 29
45498662 AAAAGAGAAA
45498672 AAGAAGAAAAGAAAGAAAGGAGAGGAAAGAG
1 AAGAAGAAAAGAAAGAAAGGAGAGG--AGAG
*
45498703 AAGAA-AAAAGAGAGAAGAGGAGAGG-GAG
1 AAGAAGAAAAGAAAGAA-AGGAGAGGAGAG
*
45498731 AA-AAGGAAAG
1 AAGAAGAAAAG
45498741 TACCGACGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
27 2 0.06
28 9 0.26
30 10 0.29
31 13 0.38
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (29 bp):
AAGAAGAAAAGAAAGAAAGGAGAGGAGAG
Found at i:45498828 original size:21 final size:21
Alignment explanation
Indices: 45498804--45498898 Score: 78
Period size: 18 Copynumber: 4.7 Consensus size: 21
45498794 GCCCTGAAGT
*
45498804 GAAGAAGAAGAAGAAAGAAAG
1 GAAGAAGAAGAAAAAAGAAAG
45498825 GAAGAAGAAGAAAAAAGAAA-
1 GAAGAAGAAGAAAAAAGAAAG
*
45498845 GAAAAATGGGAAAGAAAAAAGAAA-
1 GAAGAA---G-AAGAAAAAAGAAAG
*
45498869 AAAG-A-AAGAAAAAAGAAA-
1 GAAGAAGAAGAAAAAAGAAAG
45498887 GAA-AA-AAGAAAA
1 GAAGAAGAAGAAAA
45498899 GGAAAAAATG
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
18 23 0.36
20 5 0.08
21 19 0.30
23 2 0.03
24 15 0.23
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (21 bp):
GAAGAAGAAGAAAAAAGAAAG
Found at i:45498844 original size:7 final size:7
Alignment explanation
Indices: 45498814--45498911 Score: 60
Period size: 7 Copynumber: 13.9 Consensus size: 7
45498804 GAAGAAGAAG
45498814 AAGAAAGA
1 AAGAAA-A
* *
45498822 AAGGAAG
1 AAGAAAA
45498829 AAGAAGAA
1 AAGAA-AA
*
45498837 AA-AAGA
1 AAGAAAA
45498843 AAGAAAA
1 AAGAAAA
* **
45498850 ATGGGAA
1 AAGAAAA
45498857 A-GAAAA
1 AAGAAAA
45498863 AAGAAAA
1 AAGAAAA
45498870 AAGAAAGA
1 AAGAAA-A
45498878 AA-AAAGA
1 AAGAAA-A
45498885 AAGAAAA
1 AAGAAAA
45498892 AAG-AAA
1 AAGAAAA
*
45498898 AGGAAAA
1 AAGAAAA
45498905 AATGAAA
1 AA-GAAA
45498912 GAAAAATAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
6 12 0.17
7 40 0.57
8 18 0.26
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (7 bp):
AAGAAAA
Found at i:45498877 original size:18 final size:18
Alignment explanation
Indices: 45498814--45498917 Score: 90
Period size: 18 Copynumber: 5.7 Consensus size: 18
45498804 GAAGAAGAAG
* *
45498814 AAGAAAGAAAGGAAG-AAG
1 AAGAAAGAAA-AAAGAAAA
45498832 AAGAAA-AAAGAAAGAAAA
1 AAGAAAGAAA-AAAGAAAA
*
45498850 ATGGGAAAGAAAAAAGAAAA
1 A--AGAAAGAAAAAAGAAAA
45498870 AAGAAAGAAAAAAGAAAGA
1 AAGAAAGAAAAAAGAAA-A
*
45498889 AA-AAAG-AAAAGGAAAA
1 AAGAAAGAAAAAAGAAAA
45498905 AATGAAAGAAAAA
1 AA-GAAAGAAAAA
45498918 TAAACACAGT
Statistics
Matches: 73, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
16 3 0.04
17 15 0.21
18 32 0.44
19 7 0.10
20 13 0.18
21 3 0.04
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (18 bp):
AAGAAAGAAAAAAGAAAA
Found at i:45498918 original size:11 final size:11
Alignment explanation
Indices: 45498811--45498917 Score: 105
Period size: 11 Copynumber: 9.7 Consensus size: 11
45498801 AGTGAAGAAG
*
45498811 AAGAAGAAAGA
1 AAGAAAAAAGA
* *
45498822 AAGGAAGAAG-
1 AAGAAAAAAGA
45498832 AAGAAAAAAGA
1 AAGAAAAAAGA
*
45498843 AAGAAAAATG-
1 AAGAAAAAAGA
*
45498853 -GGAAAGAAA-A
1 AAGAAA-AAAGA
45498863 AAGAAAAAAGA
1 AAGAAAAAAGA
45498874 AAGAAAAAAGA
1 AAGAAAAAAGA
45498885 AAGAAAAAAGAA
1 AAGAAAAAAG-A
45498897 AAGGAAAAAATGA
1 AA-GAAAAAA-GA
45498910 AAGAAAAA
1 AAGAAAAA
45498918 TAAACACAGT
Statistics
Matches: 79, Mismatches: 9, Indels: 15
0.77 0.09 0.15
Matches are distributed among these distances:
9 4 0.05
10 13 0.16
11 42 0.53
12 9 0.11
13 10 0.13
14 1 0.01
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:45499271 original size:15 final size:15
Alignment explanation
Indices: 45499251--45499313 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
45499241 GCCAGGCAGT
*
45499251 CAGCAGGCCAACAAG
1 CAGCAGCCCAACAAG
45499266 CAGCAGCCCAACAAG
1 CAGCAGCCCAACAAG
** ** *
45499281 CTCCCAGCCCAGTATG
1 C-AGCAGCCCAACAAG
45499297 CAGCAGCCCAAC-AG
1 CAGCAGCCCAACAAG
45499311 CAG
1 CAG
45499314 AAAAAAAGGG
Statistics
Matches: 36, Mismatches: 11, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
14 4 0.11
15 22 0.61
16 10 0.28
ACGTcount: A:0.33, C:0.40, G:0.22, T:0.05
Consensus pattern (15 bp):
CAGCAGCCCAACAAG
Found at i:45499523 original size:24 final size:25
Alignment explanation
Indices: 45499477--45499524 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
45499467 TAAGCATTTT
*
45499477 TTATTTTGTATTTATATTTTTAATG
1 TTATTTTATATTTATATTTTTAATG
45499502 TTATTTTAT-TTTAT-TTTATTAAT
1 TTATTTTATATTTATATTT-TTAAT
45499525 TTAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 10 0.48
25 8 0.38
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (25 bp):
TTATTTTATATTTATATTTTTAATG
Found at i:45509215 original size:50 final size:50
Alignment explanation
Indices: 45509106--45509305 Score: 181
Period size: 50 Copynumber: 3.9 Consensus size: 50
45509096 ACATTAAAAG
* **
45509106 GATGAGA--TCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATTATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG-A--ACCGA
*
45509157 GGTTATGAGAGGTCCCATGTAAGACCATGTCTGGGACACGGCATTGGAACCGA
1 -G--ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGAACCGA
* * * * *
45509210 GATGAGAGGTCACC-CGTAAGACCATGTCTCGGACATGGGATGGGCACCGA
1 GATGAGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGAACCGA
* ** * * *
45509260 TATGAGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGAA
45509306 ACATAGGAAA
Statistics
Matches: 122, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
49 2 0.02
50 73 0.60
51 2 0.02
52 2 0.02
53 3 0.02
54 6 0.05
55 1 0.01
56 33 0.27
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGAACCGA
Found at i:45509522 original size:20 final size:20
Alignment explanation
Indices: 45509485--45509522 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45509475 TAAGTAAGCA
*
45509485 AGTAAGTAAACAATTAAGTG
1 AGTAAGTAAACAAGTAAGTG
*
45509505 AGTAAGTAAAGAAGTAAG
1 AGTAAGTAAACAAGTAAG
45509523 CAAAGACCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.24, T:0.21
Consensus pattern (20 bp):
AGTAAGTAAACAAGTAAGTG
Found at i:45511378 original size:22 final size:22
Alignment explanation
Indices: 45511329--45511379 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
45511319 TAGGGTAAGA
* *
45511329 TGAATGTAACCAAGTATGAACG
1 TGAATTTAACCAAGAATGAACG
*
45511351 TGAATTTAACCAAGAATGAATG
1 TGAATTTAACCAAGAATGAACG
45511373 TGAATTT
1 TGAATTT
45511380 GTCAGACTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (22 bp):
TGAATTTAACCAAGAATGAACG
Found at i:45516796 original size:50 final size:50
Alignment explanation
Indices: 45516701--45516832 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
45516691 TATTGAGGTT
* * * * * *
45516701 ATGAGAGGTCTCATGTAAGATCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACATGGGCACCGAG
* *
45516751 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACATGGGCACCGAG
* ** *
45516801 ATAAGAACTCCCACGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGA
45516833 TATCGCATTG
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACATGGGCACCGAG
Found at i:45517122 original size:20 final size:20
Alignment explanation
Indices: 45517097--45517142 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
45517087 TGAGTTTTTT
45517097 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
** *
45517117 AAGTAAGGGAGTAAGTAAAG
1 AAGTAAGCAAGTAAGTAAAC
45517137 AAGTAA
1 AAGTAA
45517143 CCAAAGACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.54, C:0.04, G:0.26, T:0.15
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:45518538 original size:76 final size:75
Alignment explanation
Indices: 45518313--45519615 Score: 1567
Period size: 76 Copynumber: 17.1 Consensus size: 75
45518303 GGGTGTTACA
* * * * * *
45518313 CTCGGGCACACGCCGATGTATTTTTCAATTTCTATTTTTTCAAAAGTCAACTTATAATCCGAGAG
1 CTCGGGCACATGCCGAGGTATTTTTCAATTTCT-GTTTTTCAAAAATCAACTCATAATGCGAGAG
45518378 GTGAGTTGAGC
65 GTGAGTTGAGC
*
45518389 CTCGGGTCGCATGCCGAGGTA-TTTTCAATTTCTGTTTTTTTCAAAAATCAACTCATAATGCGAG
1 CTCGGG-CACATGCCGAGGTATTTTTCAATTTCTG--TTTTTCAAAAATCAACTCATAATGCGAG
45518453 AGGTGAGTTGAGC
63 AGGTGAGTTGAGC
** * * * * *
45518466 CTCGGGTCGTACGCTGAGGTATTTTTCAGTTTCTGGTTTTCAAAAATCAACTCATAATGTGAGAG
1 CTCGGG-CACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAG
45518531 GTGAGTTGAGC
65 GTGAGTTGAGC
* * *
45518542 CTCGGGCACACGCCGATGTATTTTTCAATTTCTGTTTTTTTCAAAAATCAACTCATAGT-CTGAG
1 CTCGGGCACATGCCGAGGTATTTTTCAATTTCTG--TTTTTCAAAAATCAACTCATAATGC-GAG
45518606 AGGTGAGTTGAGTC
63 AGGTGAGTTGAG-C
* * * *
45518620 C-CGGGTCACATGCCGAGGCATTTTTCAATTTCTATTTTTTTAAAAATCAACTCATAATACGAGA
1 CTCGGG-CACATGCCGAGGTATTTTTCAATTTCT-GTTTTTCAAAAATCAACTCATAATGCGAGA
45518684 GGTGAGTTGAGC
64 GGTGAGTTGAGC
* * * * * * *
45518696 CCCAGGTCGCACGCTGAGGTATTTTTCAATTTCTGATTTTTCAAAAATCAACTCATAATGCAATA
1 CTC-GGGCACATGCCGAGGTATTTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGA
45518761 GGTGAGTTGAGC
64 GGTGAGTTGAGC
* * * ** * *
45518773 CTCGGGCACGTGCCGAGGTATTTTTTAATTTATGTTTTTTTATAATCAACTCATAATGCCAGAGG
1 CTCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGG
45518838 TGAGTTGAGC
66 TGAGTTGAGC
* * * * *
45518848 CTGGGGCACATGCCGAGGTACTTTTCAATTTCTGTTTTTTTAAAAATTAACTCATAATACGAGAG
1 CTCGGGCACATGCCGAGGTATTTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAG
*
45518913 GTGAGTTAAGC
65 GTGAGTTGAGC
* * *
45518924 CTCGGGCACATGCTGAGGTACTTTTCAATTTTTGTTTTTTCAAAAATCAACTCATAATGCGAGAG
1 CTCGGGCACATGCCGAGGTATTTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAG
45518989 GTGAGTTGAGC
65 GTGAGTTGAGC
* * * * * *
45519000 CTCGGGCACATGACGAGGTATTTTTTAATCTCTATTTTTTAAAAATCAACTCATAATACGAGAGG
1 CTCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAAT----G-CG
45519065 AGAGGTGAGTTGAGC
61 AGAGGTGAGTTGAGC
* * * * * *
45519080 CTCGGGCACATGACGAGGTATTTTTTTAATCTCTATTTTTCAAAAATCAGCTCATAATACGAGAG
1 CTCGGGCACATGCCGAGGTA-TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAG
45519145 GTGAGTTGAGC
65 GTGAGTTGAGC
45519156 CTCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAG
1 CTCGGGCACATGCCGAGGTATTTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAG
*
45519221 GTTAGTTGAGC
65 GTGAGTTGAGC
* * * * *
45519232 CTCGAGCACATGCCAAGGTATTTTTCAATTTCTGTTTTTTCAAAATTCAACTCATAATGTGAAAG
1 CTCGGGCACATGCCGAGGTATTTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAG
45519297 GTGAGTTGAGC
65 GTGAGTTGAGC
* * *
45519308 TTCGGGCACATGCTGAGGTATTTTTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAG
1 CTCGGGCACATGCCGAGGTA-TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAG
45519373 GTGAGTTGAGC
65 GTGAGTTGAGC
*
45519384 CTCGGGCACATGTCC-AGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCAAGA
1 CTCGGGCACATG-CCGAGGTATTTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGA
45519448 GGTGAGTTGAGC
64 GGTGAGTTGAGC
* * * * *
45519460 CTTAGGTCACACGCCCAGGTATTTTTCAAATTC--TTTTTCAAAAAAATCAACTCATAATGCGAG
1 C-TCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTC--AAAAATCAACTCATAATGCGAG
45519523 AGGTGAGTTGAGC
63 AGGTGAGTTGAGC
* * * * * * * *
45519536 CACAGGTCGCACGCTGAGGTA-TTTTCAATTTCTGTTTTTCAAATATCAACTCATAATCCGATAG
1 CTC-GGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAG
45519600 GTGAGTTGAGC
65 GTGAGTTGAGC
*
45519611 TTCGG
1 CTCGG
45519616 ATCGTCGGCC
Statistics
Matches: 1073, Mismatches: 122, Indels: 66
0.85 0.10 0.05
Matches are distributed among these distances:
74 8 0.01
75 177 0.16
76 525 0.49
77 250 0.23
78 41 0.04
79 1 0.00
80 36 0.03
81 35 0.03
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (75 bp):
CTCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGG
TGAGTTGAGC
Found at i:45519287 original size:384 final size:379
Alignment explanation
Indices: 45518313--45519615 Score: 1678
Period size: 384 Copynumber: 3.4 Consensus size: 379
45518303 GGGTGTTACA
* * * *
45518313 CTCGGGCACACGCCGATGTATTTTTCAATTTCTATTTTTTCAAAAGTCAACTTATAATCCGAGAG
1 CTCGGGCACACGCCGAGGTATTTTTCAATTTCTA-TTTTTCAAAAATCAACTCATAATGCGAGAG
*
45518378 GTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTTTCAATTTCTGTTTTTTTCAAAAATCAACTC
65 GTGAGTTGAGCCTCGGG-CACATGCCGAGGTATTTTCAATTTCTG-TTTTTTCAAAAATCAACTC
** * * * *
45518443 ATAATGCGAGAGGTGAGTTGAGCCTCGGGTCGTACGCTGAGGTATTTTTCAGTTTCTG-GTTTTC
128 ATAATGCGAGAGGTGAGTTGAGCCTCGGG-CACATGCCGAGGTATTTTTCAATTTCTGTTTTTTC
* * * *
45518507 AAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGCACACGCCGATGTATTTTTCAATT
192 AAAATTCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGCACATGCTGAGGTATTTTTCAATT
* *
45518572 TCTGTTTTTTTCAAAAATCAACTCATAGT-CTGAGAGGTGAGTTGAGTCC-CGGGTCACATGCCG
257 TCTG-TTTTTTCAAAAATCAACTCATAATGC-GAGAGGTGAGTTGAG-CCTCGGG-CACATGACG
*
45518635 AGGCATTTTTCAATTTCTATTTTTTTAAAAATCAACTCATAATAC--GAGAGGTGAGTTGAGC
318 AGGTATTTTTCAATTTCTA-TTTTTTAAAAATCAACTCATAATACGAGAGAGGTGAGTTGAGC
* * * * * *
45518696 CCCAGGTCGCACGCTGAGGTATTTTTCAATTTCTGATTTTTCAAAAATCAACTCATAATGCAATA
1 CTC-GGGCACACGCCGAGGTATTTTTCAATTTCT-ATTTTTCAAAAATCAACTCATAATGCGAGA
* * * * *
45518761 GGTGAGTTGAGCCTCGGGCACGTGCCGAGGTATTTTTTAATTTATGTTTTTT-TATAATCAACTC
64 GGTGAGTTGAGCCTCGGGCACATGCCGAGGTA-TTTTCAATTTCTGTTTTTTCAAAAATCAACTC
* * * *
45518825 ATAATGCCAGAGGTGAGTTGAGCCTGGGGCACATGCCGAGGTACTTTTCAATTTCTGTTTTTTTA
128 ATAATGCGAGAGGTGAGTTGAGCCTCGGGCACATGCCGAGGTATTTTTCAATTTCTG-TTTTTTC
** * *
45518890 AAAATT-AACTCATAATACGAGAGGTGAGTTAAGCCTCGGGCACATGCTGAGGTACTTTTCAATT
192 AAAATTCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGCACATGCTGAGGTATTTTTCAATT
*
45518954 TTTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACATGACGAGGT
257 TCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACATGACGAGGT
* *
45519019 ATTTTTTAATCTCTATTTTTTAAAAATCAACTCATAATACGAGAGGAGAGGTGAGTTGAGC
322 ATTTTTCAATTTCTATTTTTTAAAAATCAACTCATAATAC--GA-GAGAGGTGAGTTGAGC
* * * * * *
45519080 CTCGGGCACATGACGAGGTATTTTTTTAATCTCTATTTTTCAAAAATCAGCTCATAATACGAGAG
1 CTCGGGCACACGCCGAGGTA-TTTTTCAATTTCTATTTTTCAAAAATCAACTCATAATGCGAGAG
45519145 GTGAGTTGAGCCTCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCA
65 GTGAGTTGAGCCTCGGGCACATGCCGAGGTA-TTTTCAATTTCTGTTTTTTCAAAAATCAACTCA
* * *
45519210 TAATGCGAGAGGTTAGTTGAGCCTCGAGCACATGCCAAGGTATTTTTCAATTTCTGTTTTTTCAA
129 TAATGCGAGAGGTGAGTTGAGCCTCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTTCAA
* * *
45519275 AATTCAACTCATAATGTGAAAGGTGAGTTGAGCTTCGGGCACATGCTGAGGTATTTTTTTAATTT
194 AATTCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGCACATGCTGAGGTA-TTTTTCAATTT
* *
45519340 CTG-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACATGTCCAGGTA
258 CTGTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACATGACGAGGTA
* *
45519404 TTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGC-A-AGAGGTGAGTTGAGC
323 TTTTTCAATTTCTATTTTTT-AAAAATCAACTCATAATACGAGAGAGGTGAGTTGAGC
* * * *
45519460 CTTAGGTCACACGCCCAGGTATTTTTCAAATTC--TTTTTCAAAAAAATCAACTCATAATGCGAG
1 C-TCGGGCACACGCCGAGGTATTTTTCAATTTCTATTTTTC--AAAAATCAACTCATAATGCGAG
* * * * * *
45519523 AGGTGAGTTGAGCCACAGGTCGCACGCTGAGGTATTTTCAATTTCTG-TTTTTCAAATATCAACT
63 AGGTGAGTTGAGCCTC-GGGCACATGCCGAGGTATTTTCAATTTCTGTTTTTTCAAAAATCAACT
* * *
45519587 CATAATCCGATAGGTGAGTTGAGCTTCGG
127 CATAATGCGAGAGGTGAGTTGAGCCTCGG
45519616 ATCGTCGGCC
Statistics
Matches: 800, Mismatches: 99, Indels: 46
0.85 0.10 0.05
Matches are distributed among these distances:
378 6 0.01
379 65 0.08
380 99 0.12
381 91 0.11
382 93 0.12
383 128 0.16
384 288 0.36
385 30 0.04
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (379 bp):
CTCGGGCACACGCCGAGGTATTTTTCAATTTCTATTTTTCAAAAATCAACTCATAATGCGAGAGG
TGAGTTGAGCCTCGGGCACATGCCGAGGTATTTTCAATTTCTGTTTTTTCAAAAATCAACTCATA
ATGCGAGAGGTGAGTTGAGCCTCGGGCACATGCCGAGGTATTTTTCAATTTCTGTTTTTTCAAAA
TTCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGCACATGCTGAGGTATTTTTCAATTTCTG
TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACATGACGAGGTATTT
TTCAATTTCTATTTTTTAAAAATCAACTCATAATACGAGAGAGGTGAGTTGAGC
Found at i:45519835 original size:30 final size:30
Alignment explanation
Indices: 45519796--45519928 Score: 149
Period size: 30 Copynumber: 4.4 Consensus size: 30
45519786 ATTTTTAAAA
* * *
45519796 AAAATTACATTTTGACCCTTAAATTTTCTT
1 AAAATTACATTTTAACCCTTAAACTTTCCT
* *
45519826 AAAAGTACATTTTAACCCTTAAATTTTCCT
1 AAAATTACATTTTAACCCTTAAACTTTCCT
* ** *
45519856 AAAATTATATTTTAACCCACAAACTTTCTT
1 AAAATTACATTTTAACCCTTAAACTTTCCT
* * *
45519886 GAAATTACATTTTAACCCCTAAACATTCCT
1 AAAATTACATTTTAACCCTTAAACTTTCCT
*
45519916 AAAATTATATTTT
1 AAAATTACATTTT
45519929 GACATCAAAT
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 86 1.00
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTTAAACTTTCCT
Found at i:45519884 original size:60 final size:60
Alignment explanation
Indices: 45519796--45519928 Score: 176
Period size: 60 Copynumber: 2.2 Consensus size: 60
45519786 ATTTTTAAAA
* * ** * * **
45519796 AAAATTACATTTTGACCCTTAAATTTTCTTAAAAGTACATTTTAACCCTTAAATTTTCCT
1 AAAATTATATTTTAACCCACAAACTTTCTTAAAAGTACATTTTAACCCCTAAACATTCCT
* *
45519856 AAAATTATATTTTAACCCACAAACTTTCTTGAAATTACATTTTAACCCCTAAACATTCCT
1 AAAATTATATTTTAACCCACAAACTTTCTTAAAAGTACATTTTAACCCCTAAACATTCCT
45519916 AAAATTATATTTT
1 AAAATTATATTTT
45519929 GACATCAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (60 bp):
AAAATTATATTTTAACCCACAAACTTTCTTAAAAGTACATTTTAACCCCTAAACATTCCT
Found at i:45520177 original size:12 final size:12
Alignment explanation
Indices: 45520162--45520188 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45520152 AAAGAAACAA
45520162 AAAAAATCAAGC
1 AAAAAATCAAGC
45520174 AAAAAATCAAGC
1 AAAAAATCAAGC
45520186 AAA
1 AAA
45520189 GAATAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.15, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAAATCAAGC
Found at i:45520352 original size:25 final size:22
Alignment explanation
Indices: 45520324--45520377 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 22
45520314 AAAATAGAAG
45520324 AGAAAAAACAGAGAGAAAGAAGAGA
1 AGAAAAAA-AGAGAG-AA-AAGAGA
45520349 AGAAAGAAAAGAGAGAAAAGAGA
1 AGAAA-AAAAGAGAGAAAAGAGA
45520372 A-AAAAA
1 AGAAAAA
45520378 TAGACAAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 2 0.07
22 3 0.11
23 7 0.25
24 2 0.07
25 11 0.39
26 3 0.11
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (22 bp):
AGAAAAAAAGAGAGAAAAGAGA
Found at i:45520363 original size:16 final size:17
Alignment explanation
Indices: 45520333--45520374 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
45520323 GAGAAAAAAC
45520333 AGAGAGAAAGAAGAGAAGA
1 AGAGA-AAAGAAGAGAA-A
45520352 A-AGAAAAG-AGAGAAA
1 AGAGAAAAGAAGAGAAA
45520367 AGAGAAAA
1 AGAGAAAA
45520375 AAATAGACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.09
16 12 0.55
17 4 0.18
18 3 0.14
19 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (17 bp):
AGAGAAAAGAAGAGAAA
Found at i:45520367 original size:9 final size:9
Alignment explanation
Indices: 45520321--45520375 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
45520311 TCGAAAATAG
*
45520321 AAGAGAAAA
1 AAGAGAGAA
*
45520330 AACAGAGAGA
1 AAGAGAGA-A
*
45520340 AAGA-AGAG
1 AAGAGAGAA
*
45520348 AAGAAAGAA
1 AAGAGAGAA
45520357 AAGAGAGAA
1 AAGAGAGAA
45520366 AAGAGA-AA
1 AAGAGAGAA
45520374 AA
1 AA
45520376 AATAGACAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 8 0.21
9 26 0.68
10 4 0.11
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (9 bp):
AAGAGAGAA
Found at i:45520550 original size:28 final size:27
Alignment explanation
Indices: 45520495--45520567 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
45520485 AAGGAAGAAG
* * **
45520495 AAGAAGAAAAAAGAAAGAAAAAGGGGA
1 AAGAAAAAAAAAAAAAGAAAAAAAGGA
45520522 AAGAAAAAAGAAAAAAAGAAAAAAAGGA
1 AAGAAAAAA-AAAAAAAGAAAAAAAGGA
45520550 AAGAAAAAATAATAAAAA
1 AAGAAAAAA-AA-AAAAA
45520568 ATATAAACAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.21
28 26 0.67
29 5 0.13
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (27 bp):
AAGAAAAAAAAAAAAAGAAAAAAAGGA
Found at i:45520552 original size:21 final size:22
Alignment explanation
Indices: 45520471--45520558 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 22
45520461 CCCTAAAGTG
* *
45520471 AAGAAGAAGAAAGGAAGGAAGAAG
1 AAGAAGAA-AAAGGAAAGAA-AAA
*
45520495 AAGAAGAAAAAAGAAAG--AAA
1 AAGAAGAAAAAGGAAAGAAAAA
** *
45520515 AAGGGGAAAGAA-AAAAGAAAAA
1 AAGAAGAAA-AAGGAAAGAAAAA
45520537 AAGAA-AAAAAGGAAAGAAAAA
1 AAGAAGAAAAAGGAAAGAAAAA
45520558 A
1 A
45520559 TAATAAAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
20 15 0.29
21 15 0.29
22 6 0.12
23 7 0.14
24 8 0.16
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (22 bp):
AAGAAGAAAAAGGAAAGAAAAA
Found at i:45520567 original size:21 final size:21
Alignment explanation
Indices: 45520471--45520558 Score: 63
Period size: 23 Copynumber: 4.0 Consensus size: 21
45520461 CCCTAAAGTG
* *
45520471 AAGAAGAAGAAAGGAAGGAAGAAG
1 AAGAA-AA-AAAGGAAAGAA-AAA
*
45520495 AAGAAGAAAAAAGAAAGAAAAA
1 AAGAA-AAAAAGGAAAGAAAAA
** *
45520517 GGGGAAAGAAA--AAAGAAAAA
1 -AAGAAAAAAAGGAAAGAAAAA
45520537 AAGAAAAAAAGGAAAGAAAAA
1 AAGAAAAAAAGGAAAGAAAAA
45520558 A
1 A
45520559 TAATAAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
19 7 0.13
20 9 0.17
21 10 0.19
22 6 0.12
23 12 0.23
24 8 0.15
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAAGGAAAGAAAAA
Found at i:45521123 original size:12 final size:12
Alignment explanation
Indices: 45521106--45521139 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
45521096 AATATTACTG
45521106 GCATTTTTTTAA
1 GCATTTTTTTAA
45521118 GCA-TTTTTTAA
1 GCATTTTTTTAA
45521129 GCATTTTTTTA
1 GCATTTTTTTA
45521140 TTTTGTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (12 bp):
GCATTTTTTTAA
Found at i:45523872 original size:18 final size:17
Alignment explanation
Indices: 45523849--45523903 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
45523839 AGAAAAGAAG
*
45523849 AAAAGAAGGATAAAACGA
1 AAAAGAA-GAAAAAACGA
*
45523867 AAAAG-AGAAAAAAGGA
1 AAAAGAAGAAAAAACGA
*
45523883 AAAAGAAAGAAAAAATGA
1 AAAAG-AAGAAAAAACGA
45523901 AAA
1 AAA
45523904 GAGGAAGGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 13 0.41
17 1 0.03
18 18 0.56
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (17 bp):
AAAAGAAGAAAAAACGA
Found at i:45523904 original size:33 final size:32
Alignment explanation
Indices: 45523832--45523906 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
45523822 CGACGTAAAG
* *
45523832 ATGAAAA-AGAAAAGAAGAAAAGAAGGATAAA
1 ATGAAAAGAGAAAAGAAGAAAAGAAAGAAAAA
*
45523863 ACGAAAAAGAGAAAA-AAGGAAAAAGAAAGAAAAA
1 ATG-AAAAGAGAAAAGAA-G-AAAAGAAAGAAAAA
45523897 ATGAAAAGAG
1 ATGAAAAGAG
45523907 GAAGGAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
31 2 0.06
32 6 0.17
33 14 0.39
34 14 0.39
ACGTcount: A:0.72, C:0.01, G:0.23, T:0.04
Consensus pattern (32 bp):
ATGAAAAGAGAAAAGAAGAAAAGAAAGAAAAA
Found at i:45524831 original size:2 final size:2
Alignment explanation
Indices: 45524824--45524849 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45524814 TATGTACTAT
45524824 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
45524850 AAAACAGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45526293 original size:15 final size:15
Alignment explanation
Indices: 45526273--45526323 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
45526263 ACAACACGAT
45526273 AACGTAAATGACTAA
1 AACGTAAATGACTAA
*
45526288 AACGTAACATG--TCA
1 AACGTAA-ATGACTAA
* *
45526302 AACATAAGTGACTAA
1 AACGTAAATGACTAA
45526317 AACGTAA
1 AACGTAA
45526324 TCTGAAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 2 0.07
14 8 0.29
15 15 0.54
16 3 0.11
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.20
Consensus pattern (15 bp):
AACGTAAATGACTAA
Found at i:45526342 original size:31 final size:29
Alignment explanation
Indices: 45526281--45526344 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
45526271 ATAACGTAAA
* *
45526281 TGACTAAAACGTAACATGTCAAACATAAG
1 TGACTAAAACGTAACAAGTCAAACAAAAG
45526310 TGACTAAAACGTAATCTGAAGT-AAACAAAAG
1 TGACTAAAACGTAA-C--AAGTCAAACAAAAG
45526341 TGAC
1 TGAC
45526345 AATGGGTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 14 0.47
30 1 0.03
31 12 0.40
32 3 0.10
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (29 bp):
TGACTAAAACGTAACAAGTCAAACAAAAG
Found at i:45528088 original size:2 final size:2
Alignment explanation
Indices: 45528081--45528110 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
45528071 ATTTTAAATT
45528081 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45528111 CATACTTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45528199 original size:39 final size:41
Alignment explanation
Indices: 45528132--45528208 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
45528122 GTATCCTTTT
*
45528132 TATAAATATATATACACGTACTTATTTTTATAATTTATCTA
1 TATAAATATATACACACGTACTTATTTTTATAATTTATCTA
* * *
45528173 TATAAATATATACATACTTA-TT-TTTTTATATTTTAT
1 TATAAATATATACACACGTACTTATTTTTATAATTTAT
45528209 AATTTTCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 13 0.41
40 2 0.06
41 17 0.53
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (41 bp):
TATAAATATATACACACGTACTTATTTTTATAATTTATCTA
Found at i:45533129 original size:1 final size:1
Alignment explanation
Indices: 45533123--45533180 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
45533113 TAGTGGAGGC
* * * * * * *
45533123 AAAAAAACAAAAAAAAAACAAAAAAAAATAAAAAAACAAGAAAATAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
45533181 CCTCTACCGG
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.03
Consensus pattern (1 bp):
A
Found at i:45533139 original size:11 final size:11
Alignment explanation
Indices: 45533123--45533180 Score: 73
Period size: 11 Copynumber: 5.3 Consensus size: 11
45533113 TAGTGGAGGC
45533123 AAAAAAACAAA
1 AAAAAAACAAA
45533134 AAAAAAAC-AA
1 AAAAAAACAAA
*
45533144 AAAAAAATAAA
1 AAAAAAACAAA
* *
45533155 AAAACAAGAAA
1 AAAAAAACAAA
45533166 ATAAAAAACAAA
1 A-AAAAAACAAA
45533178 AAA
1 AAA
45533181 CCTCTACCGG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
10 9 0.22
11 22 0.55
12 9 0.22
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.03
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:45533155 original size:15 final size:14
Alignment explanation
Indices: 45533123--45533180 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
45533113 TAGTGGAGGC
45533123 AAAAAAACAAAAAA-
1 AAAAAAA-AAAAAAT
45533137 AAAACAAAAAAAAAT
1 AAAA-AAAAAAAAAT
45533152 AAAAAAACAAGAAAAT
1 AAAAAAA-AA-AAAAT
45533168 AAAAAACAAAAAA
1 AAAAAA-AAAAAA
45533181 CCTCTACCGG
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
14 13 0.33
15 12 0.31
16 13 0.33
17 1 0.03
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAAAT
Found at i:45534078 original size:93 final size:94
Alignment explanation
Indices: 45533930--45534108 Score: 243
Period size: 93 Copynumber: 1.9 Consensus size: 94
45533920 TGAATCTTGG
*
45533930 CAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGCTATCAACAAAATTTCATCTTAT
1 CAAAATTTGCTATC-T--TTAATTAATTCATTTCGAGCTTTGCTATCAACAAAATTTCATCTTAT
*
45533995 CCATTGTGGTAATCTTTTTCATCTTATCTTAA
63 CCATTGTGATAATCTTTTTCATCTTATCTTAA
* * * * * * *
45534027 CAAAATTTGCTATC-TTAATTAATTCATTTCGATCTTTGTTCTTAATAAAATTTCATTTTGTCCA
1 CAAAATTTGCTATCTTTAATTAATTCATTTCGAGCTTTGCTATCAACAAAATTTCATCTTATCCA
45534091 TTGTGATAATCTTTTTCA
66 TTGTGATAATCTTTTTCA
45534109 AGCATTTTTC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
93 59 0.81
97 14 0.19
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (94 bp):
CAAAATTTGCTATCTTTAATTAATTCATTTCGAGCTTTGCTATCAACAAAATTTCATCTTATCCA
TTGTGATAATCTTTTTCATCTTATCTTAA
Found at i:45535812 original size:129 final size:129
Alignment explanation
Indices: 45534718--45535788 Score: 1570
Period size: 129 Copynumber: 8.3 Consensus size: 129
45534708 AGTAAAGCTA
*
45534718 CAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
** * * * * * *
45534783 GTAGTAGAGCAGATCGCATCCAATCTTATCTCCCTAAAGTTGTAGTGGAGTA-A-AAAAAAAAC
66 ACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACAAAAGAAAC
*
45534845 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * *
45534910 ACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGCGGAACAGACAGAAGAAAC
66 ACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACAAAAGAAAC
* * *
45534974 TAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * *
45535039 ACAGTAAAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAAAAAAGAAAC
66 ACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACAAAAGAAAC
* *
45535103 CAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACAGATCTTATCTCTTTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * * *
45535168 ACAGTAGAGCAGATCGCATCCAGTCTCATCTCTCTGAAGTTACAGCAGAGCAGACAAAAGAAAC
66 ACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACAAAAGAAAC
* * * * *
45535232 CAATCTTATCTCCCTAAAATTACAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * * * * * *
45535297 GCAGTAGAGCATATCGCATCCAGTCTTATCTCTCTGAAGTTGCAGCAGAACAGACAGAAGAAAT
66 ACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACAAAAGAAAC
* * *
45535361 CAATCCTATCTTCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTCATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
** * * *
45535426 GTAGTAGAACAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAAAC
66 ACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACAAAAGAAAC
*
45535490 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
** * *
45535555 GTAGTAGAGCAGATCGCATCCATTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGAAAC
66 ACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACAAAAGAAAC
* * * *
45535619 AAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATTTCTCTAAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * ** **
45535684 ACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGCTAC
66 ACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACAAAAGAAAC
* *
45535748 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
45535789 GATGAATCCT
Statistics
Matches: 854, Mismatches: 88, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
127 108 0.13
128 1 0.00
129 745 0.87
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (129 bp):
CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
ACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACAAAAGAAAC
Found at i:45538854 original size:22 final size:22
Alignment explanation
Indices: 45538811--45538855 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
45538801 TCGTTGATCA
* *
45538811 AAATCGTTGTTTTAATAAAATC
1 AAATCGTTGTATTAAAAAAATC
45538833 AAATCGTT-TATTAAAAACAATC
1 AAATCGTTGTATTAAAAA-AATC
45538855 A
1 A
45538856 TTTTTCGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.36
Consensus pattern (22 bp):
AAATCGTTGTATTAAAAAAATC
Done.